Array 1 34053-33841 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ==================================== ================== 34052 30 96.7 36 .........T.................... CTCTATATTTTAGCCAAAGATAGTAGGTTTAGCTGA 33986 30 100.0 36 .............................. TGATGTGAGTAACAATAAAATAGATACAAGTCGTTA 33920 30 96.7 20 ...........................G.. ACAGAAGCAAGCAAGACAAC Deletion [33871] 33870 30 96.7 0 .............A................ | ========== ====== ====== ====== ============================== ==================================== ================== 4 30 97.5 31 GTTTAAATACACATAGTGTTAAGGTTTAAT # Left flank : AACCACTTTTATTGGCGTCATTTAAATACACATAGTGTTAAGGTTTACTATTCCTATCAAAAAGTACTATTCTTTCAGTTCCATAATTTTAATACACATAGTGTTAAGGTTTAATCAAAAGTAACTGGCATATATTGTTTTGTACAAGAATCAATAAACTTTTGAAATTCTTCCTTTATTTCCATGCAAACAACTTCAGTAAATTTTAATTCATTTATATAAAATTTTGTATAATCTTTAATGTCAAAATTTCCTCTTAAAACAGATTCTTGTATTTCTTCTTTTATAGCTTCCAACTGCAATTTAACAATATCAATATCTAATTCATCATTAAAAGATTTTAATTTCTGCAATTTTTTTATAGTCTTAAACTCACAAATATTGTTAGTTTTATCATAAAAAAGTATCCCTAAAGCTATAGAGTCTTTAGACTCTACAGAAGGATAATAACAAAAAATTGAATATTGAACATTTATCAATTTAAATATACCCCCTATTTA # Right flank : AGCTGTAAACAAGCCACCTCTCAAAATTAAGAAATGATTACAACAGAGCAATTTCAGTTAATCTAAGTTTTTTATCCCAGCTAATAATTAAAAATGATAATGTAGATATTTCAAAATATATACAAATTAGATTGAGATATATTAATTATATCACTATATAAACTAACTTATACTATTTTATATAAACAATAAAAATATAATTATTATAAAATAACAATAATACATAAAAAGGCACCTCCCTTTCTACAATAAAAATATTAGTTTTTTAATTGATATTTAATAATGTAGTTTTAGAATGGGCCTTTATAGATTTGAAGTTTTTCAAAAAGAAAATACTTATTATTAATATATATTGTTATACTTTTAAATACACACAGTATTAAGGTTCAATAGCTATAAAGAATCTATTTGTAAAATCAATAAATACTTAAAATCACTACATTCCAACTAAGTTAAGTTCTTTTTCCCAATTAAAAGATAAAAATAATATGTAGATATTT # Questionable array : NO Score: 5.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:-0.39, 8:0.6, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTAAATACACATAGTGTTAAGGTTTAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:76.67%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [66.7-80.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.68 Confidence: HIGH] # Array family : NA // Array 2 35938-36290 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ========================= ========================================= ================== 35938 25 96.0 41 ................A........ TAAACCATGCTCCACCTCCTACAATATATAAGTTTTGAGTT 36004 25 100.0 41 ......................... AAAATTATGGGACTGAAAGAATAGTACTTTTTGATAGGAAT 36070 25 92.0 40 ................AC....... TAAACAGAAGAAGCCTTTCTAAATAAAATAGCTACAGTTA 36135 25 100.0 41 ......................... CAAACTAACGATTTGTATTTATTTTATTGTTACTTATATTA 36201 25 100.0 40 ......................... TAAATAACGCCAATAAAAGTGGTTAAAAAAAGCTATCTAA 36266 25 68.0 0 .....CAGA..G.T....T..A... | ========== ====== ====== ====== ========================= ========================================= ================== 6 25 92.7 41 ATTAAACCTTAACACTTTGTGTATT # Left flank : TATTAAACATATTTCTGGTGTTTTATTTTTTACATACTCTAAGACTAATCCATTTTCTCTTACAGCATTAATGCACATCTCATATGTCTGTTTTTCTGCATTTATCAAAGACCATGGATGTTCCTTTACCCAATCTACATCTATTTTTCCCATTTAACTCTCCTTTTTCAATCTTATTTTTATAATACTATATTTCGATTTATTATAGTATTATTTATTTTCCTTTATAATTATTGTACTTTTTCTATTGACTATATAAAATATTGTAACTTGATTTATATAGTGATATAATTAGTTTATCCCAATCTAATTGATGCAGTTGGAAACTATAAAAGAAGAAGTACAAGAATCTGTTTTAAAAGGAAATTTTAACATTAAAGATTATACAAAGTTTTATGTAAATGAATTAAGATTTACTGAAGTTGTTTGTATTGACATAGAGGAAGAATTTCAAGATTTTATTAATGCTTGTACAAAACAATATATGCCAGTTACTTTTG # Right flank : TATTAAAACTTTTTAAAAATTTAAGATATCTTTTCCTATGAGTATTTATTCTTTTCTCTGGGTCAAATCCTCCATCTGTATTATAAATTCTATCAATAAAAGTCTCTTTAGTAATATTATCTTGGCATCCTACAGTAAATAACCATTCTCCATCTTTTTCTATTGCTATTACTTCACTTGCATTTCCCTGCTCTTTTAAATATTTAATATTAAATTCTTCTAAATATTTTTCCTTATCTATTACATACTTAATTGCATCTTTATCTTGTTTTAGAGCTTCTCTACATATCTCTTCTGTTTGGTTTTCTACAAATTGTATTGCCAATCCATCATGTCCTACTGCTTCCATACATATTTTTAGAGTCTGTTCTATTACAAATTCTAAAGATAAGTAGTACTCTCTTACAGCTTCTATGCATATCTCTTCTGTTTGTTCTTTTACGTACTCTAAAGCTAAACCATTTTGCTTGACTGCAATTAAACATATCTCTTCGGTTTGT # Questionable array : NO Score: 5.90 # Score Detail : 1:0, 2:3, 3:0, 4:0.64, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTAAACCTTAACACTTTGTGTATT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:76.00%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-80.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 3 38445-38735 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== =============================== ===================================== ================== 38445 31 100.0 37 ............................... AATCTTTCTACCATAGATAAATACCACCTTTAATATT 38513 31 100.0 35 ............................... TAGCCTTTTAACAGATCCTGAAAAAGAAACTCCAA 38579 31 100.0 35 ............................... GCAATATTGAAACAGGAAATTCGAGTATAAGTTTA 38645 31 87.1 29 G..............C...G..........C CTGTTATGTCCAGCTCGTACCCATATCCA 38705 31 77.4 0 G..............C...G....AAA...G | ========== ====== ====== ====== =============================== ===================================== ================== 5 31 92.9 34 TATTAAACCTTAACATTATATGTATTTAAAT # Left flank : TACCTCCCACATGCTTATCTAATTGTTTAGATTAAACCTTAACACTCTGTGTAATAAAAAAGAAGCTCCTATAGCTATTATAGGAGCTTCTTTTTTATTTTCTTTTATTATATTTGCATCTTACACACATTTTCTCTAACCTCAAACTCCATATTATTGGTTTACATAAATGATTGAGTTTAATACCATGTGTATTTAAATGCAAACAAGCCTATTAAAAGATTATTTAGTTCTAAAAATTATTTGGCTCTTTTATTTTTATAATAAAATTATACTATATTTATATATTTCTATCAATAGTAGCCAATAAAAATTGTTTATATGAAATATTGTAAGTCAATTTATATAGTGATATAATTAAATTATCCCAAGTTAATTAATAGATCATTTGAAATATCTACATTCTTATTTTTAACTATTAGTTGGGATAAAAAGCTTAAGACAATTGAAATTGCTGTATTGTAAGCATCTCTTAATTTTGGGAATGGCTTATTTACAGC # Right flank : GAAGCTTCTATAATCTCTATAGAAGCTTCTTTTTTTATTTTCTTTTTATTGTACTATATGGTCGTTGGTGTCGTCCCACATACTACCCCTAATTTCAAATTCTAAATTCTTTTCATCGCACAGCTTCTCTTTAGATTTAGTGCTTCCAACCCCTGTAAGCTCTGGAGTCCACACATCTAAGCTATAGAATCCGTCTTTTGTATTAGTTCCTGTGTAAATCTTTATAGGTTCTTCTACTCCATTTTTAGATTTTTTCTGCATTGTATATCTTAAAACTGTCTTATCTGCATTTGTACTTACAACTGTTACATCAAAAACTTTTTGGCTTCCAAAAATTCCTGTTGCAGATAAAGTCTTCCCATCTGCTGTTTTTACATATATATCTTTATAAATGTTTGGAGCCATATTTTGGTTAGTTACACTTAATCCTTTACTTGTACTTGTATTTCTTGTATCCCAAGCCTTTGGTTGCCCTGTTAGTGCATTCGTATTATATTCCA # Questionable array : NO Score: 5.71 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : TATTAAACCTTAACATTATATGTATTTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:87.10%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [66.7-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 4 43126-43717 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ==================================== ================== 43126 30 93.3 36 ..............T...A........... GCTGTTAGAAAATGAAGAAGGTGAAGAAAATGTATG 43192 30 93.3 35 ..............T...A........... ATAGGTATAAATCAAACTTACAAACAACTAAAGGA 43257 30 93.3 35 ..............T...A........... TTATTATCAAACCATATATCTCTATAGATACCCAT 43322 30 90.0 27 ..............T...A..........A AAGGGGGATTGAAATGAAAATAGTAAG Deletion [43379] 43379 30 96.7 36 .......T...................... ACGCAAGATGCAAATGGAAGACCACAAAGCGGTACT 43445 30 100.0 36 .............................. TTAGTTTTTAGTGCATTTTTCAATGTTTCTCCGTTT 43511 30 100.0 17 .............................. TTAATTACTAACGTATC Deletion [43558] 43558 30 76.7 31 CCCTGCT....................... GCTATATACTTCATTTAGCTTAGTATTCATC 43619 30 100.0 36 .............................. AATACTCTTCCTCATAAAACCACATTAAAAAAAGAC 43685 30 86.7 0 .................CA......G...G | A,A,G [43707,43710,43714] ========== ====== ====== ====== ============================== ==================================== ================== 10 30 93.0 32 ATTAAACCTTAACACTATGTGTATTTAAAC # Left flank : CTTTTAATTCGTTCCACTTTACAAATCTAAGAGCTAAGCCATCTTGACTAACTGCAATAAAACATAAATTATATATCTTCTTCTTATTTAGATTAAGTTCATCCCACCTTACATCTTTAAGCAATCCCCCTTGTCGCTTTACTGCTTCTATACACATCTCATAAGTTTGTTTTTGCATGTGTGCCAATCCCCATGGGTATTTTTTTATCCACTCTAAATCTGTTTTATGCATTTACCTATCACCCCCTTCTTATTTTCATAGTATTATATGTTATACTTTAATTTTATTTATAATAATCATACCATTTTTATTGTTTATATAAAATATTGTAAGTTAATTTACTTAGTGATATAATATAAATTATCCCAAGCTAATTGATATATATGTTTAAATATCTACATTCTTATTTTTAACTATTGGTTGGGATAAAAAGATTAAATCAATTGAAACTACTGTATTATAAGATTTTCTTAATTTTAGAAATGGCTTGTTTACAGTG # Right flank : GAAGCTATCTAAATTAATAGATAGCTCTTCTTAATATTATTCAAACTCTTTTAAGAAATCAACATAAACTTGTCTATGGACATTAATATCTTTTTCTGGGTCAAAGCCTCCATCTGTATTATAGATTCTTTCTATAAATTCATCCTTAGTTATTTTATATTGGTAACCTATAGCAAATAGCCACTCCCCATCTTCTTTTATCGCTATTACTTCTCTTACTTTACCATGAGCTTCTAAATATTTAATCCCAAACTCCTTTAAGTATTTTTCTTTATCTATTATATACTTTATTGCAAGTTTATTTTGTTTTAGAGCTTCTTTACATACCTCATATATTTTATTTTCTACATATCCAAGAGCTAATCCATTTTGCTTGACTGCTTCAGTACAAAGCTCATTAGACTGTTCTTTTACATACATTAAAGCTAATCCATTCTCTTTTACTGCTTCTAAACAGATTTCTTTGGTTTGCTCTTTCACATACTCAAGAGCATATCCAT # Questionable array : NO Score: 5.37 # Score Detail : 1:0, 2:3, 3:0, 4:0.69, 5:0, 6:0.25, 7:-0.16, 8:1, 9:0.59, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTAAACCTTAACACTATGTGTATTTAAAC # Alternate repeat : ATTAAACCTTAACATTATATGTATTTAAAC # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:76.67%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 5 46050-46541 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 46050 30 100.0 36 .............................. TGTATATACTTGTTTAAGTCTTTGGAATAACTGTAA T [46054] 46117 30 96.7 36 ...........G.................. GTAACTCTACCTTCTTAATTAACTATTCATATTATT 46183 30 100.0 37 .............................. ACAATGATAATGAAGAAGATGATTATAAGCTTGTCCT 46250 30 100.0 36 .............................. AACCTTTTGTATTACTAAAATAGATATGTATTTATT 46316 30 100.0 36 .............................. TAATTATCTTCTAATGCTACCATTCCTAACTTAATC 46382 30 100.0 35 .............................. AATACTATATTTGAAATTAAACTTTTCTCTAAATT 46447 30 96.7 35 ..........G................... TAATTTAATGATACATTTTTTGAAATAAATGATAT 46512 30 86.7 0 .......................AAA...A | ========== ====== ====== ====== ============================== ===================================== ================== 8 30 97.5 36 ATTAAACCTTAACACTATGTGTATTTAAAC # Left flank : AATAATAGCTATTAAATCTTTTACATATTCAAATCTCAATATTTTTTCATATTTCTTCTTATCCTTTACATATTTAATTGCCAATCCATTTTGTCTTACTGCTATGATACATAAATTAAATATCTGCTTCTCACTTAAACTTAGTTCATTCCATCTTATATCTTTAAGTAATCTACCATCTCGTTTTACTGCCTCTATGCACATCTCATAAGTTTGTGTTTTTGCATTTTTCAAATCCCATGGATATTTTCTTATTTTATCTAAGTCTGTTTCATTCATACATTTATCTCCTTTTTGTATTTTTATGATTAATATATTATTAAAAAAGTATATTTATAATAATTATACTTTTTTATTGATTATATAAAATATTGTAAATTGATTCATATAGTGATATACTTAATTTATCCCAAGTTAATTGATAGATCATTTGGAGTATCTATATTTTTATTTTTAACTATTAGTTGGGATAAAAAGCTTATAGGAATTGAAACTACTGA # Right flank : AGAAGTTACCTATAAATTAGATAACTTCTTTTTATTTATATTATTTATTATAAATGTCTACATAGACTCCCATGCTTCCATTTCTAATTTCTATTTTCTTACCATCTAACTCTAAGGTTTGGTCTTCGAATTTTCCTTTTACAATATTAAAAAGTTCTTCTCCTTTATTTGGTAGAAGCAGTTTAAAGCACTGCATTACAGAAGAATCAAATTCCTCAGAATTGGCAAATAAGCCGAATCCAACTACATTATCTTTTGCATTTACAAGTCCCATTCGATTGTCATTTTGCATATACTTATACGTTGTTTCGCCCTCAAACGTCCATCCAAGTCCAGGTAGCTTATTTCTAAACTCTGCATTTGTAATAGCTTCAGAAGGGAGAGGAAATCCTTTTAATATATTTAAAATTTCTCTAAAAACATTTTCATTCCCTCCATCGCCGACTTGTGTAACTTTACTAAATTCATGTTTTTTTATAAAATTTTTCTGGCTTGTACTT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTAAACCTTAACACTATGTGTATTTAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:76.67%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [2-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-83.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 6 48391-48741 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 48391 30 100.0 36 .............................. GATAAAGCTAAAGAAATAGCTAAAGAAATGAAATAA 48457 30 100.0 36 .............................. AAATTAACATTTAAAGGAGTTTTTTTATTACACCAG 48523 30 100.0 36 .............................. GAAGCTATACAAGTTAAGATATTTTCAAGAAATAGA 48589 30 100.0 37 .............................. ACTATCTTTGCACATTTTTTTATTATCTTCGTACACT 48656 30 100.0 27 .............................. TCTCCTTTTAATATATTTAAAATTTCT Deletion [48713] 48713 29 83.3 0 ................T......-AA...G | ========== ====== ====== ====== ============================== ===================================== ================== 6 30 97.2 35 ATTAAACCTTAACACTATGTGTATTTAAAC # Left flank : TTATTTTTTTCATTTTATTTCCCTCCATATCCCCTCTATTTATAGTAAACATTATATAATACATACTATAAAAAATATGTAAAATATTGTCACTTAATTATAAATAAAGGAGTCTATCTATTTATATAAGTTTTTTTATAAAAAAACTGTTCTATTTTCTTATTTTAATAGTAATTTTTTACCAATACATTATATACAAAACAATTTATCTTATAACATCTCTTTCCTAAAAGTTGCCTTTTTATATAATACTAACTTTAATTATATAATATGTATTTATTTGGAAATTGTCAATATTTTTAATAAATTTTATTGATTATATAAAATATTGTAAGTATATTTACTTAGTGATATAATTAAATTATTCCAAGCTAATTGATGTATTATTTGGAATATCTGCATTTCCATTTTTAACTATTATTTGGGATAAAAAGATTAGATTAATTGAAGATACTGTACTATAAGTATTTCTAAAATTAAGAAATGGCTTATTTACAGCT # Right flank : GAAGTTATCTATAAATTAGATAACTTCTTTTTATTTATATTATTTATTATAAATGTCTACATAGACTCCCATGCTTCCATTTCTAATTTCTATTTTCTTACCATCTAACTCTAAGGTTTGGTCTTCGAATTTTCCTTTTACAATATTAAAAAGTTCTTCTCCTTTATTTGGTAGAAGCAGTTTAAAGCACTGCATTACAGAAGAATCAAATTCCTCAGAATTGGCAAATAAGCCGAATCCAACTACATTATCTTTTGCATTTACAAGTCCCATTCGATTGTTTTCTTGCATATACTTATAAGTTGTTTCTCCTTCAAATTTCCATCCAAGTCCTTCCAACTTGTTTCTAAACACCTCATTGCTAACACTCAAATCAGCATCATTCTTATCTTCTTCTTTTTTATCCTGGTCCTTTACATTTATAGCATTAATTTTAATTCCATTATTATCTTCTTTAAATCCTAAATAATTAACCAATATTTCTTTTGGGATAAGAAAAT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:-0.02, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTAAACCTTAACACTATGTGTATTTAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:76.67%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [76.7-86.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 7 62073-62301 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 62073 30 100.0 36 .............................. TGTACTATTTTTTATGTGTAATATTGCAATCTTTTA 62139 30 100.0 36 .............................. CCTGTTGCTTCACCTGTTTGAAGTAATATTTTACCA 62205 30 100.0 37 .............................. TTGTCGTTGTAGGACAACAACAGCTCCTTGGTTCGAG 62272 30 93.3 0 A...............T............. | ========== ====== ====== ====== ============================== ===================================== ================== 4 30 98.3 37 GTTAAACCTTAACACTATGTGTATTTAAAC # Left flank : AATAAATTCTATAATTTTTTTCAAGAATCTAAAATATATTTCTCTATAAATGTTTATTTACAACTTTAAATTAGATTCTCATAATTTAATTGCTGTAAGATATAAATTATATAACTGCTCTTTAGTTAAGTTAAGCTCACCCCATCTTACATCTTTAAGCAACACTCTTGTCGCTTTACTACTTCTATGCACATCTCATAATTTTGTTTTTTTCATTTCTTAATTCCCAGGGATTTCTTTTATCCCATTTAAACTTATTCCATATATATCCCCCTTTTCAATATTATTTTTATAAAATTTACATCATTTTTATTGTTTATATTAAATATTGTAAATTTATTTATATAGTGATATAATCAAATTATCCCAAGTTAATTTATATAGACTTTGAAATATCTATATTCTTATTTTTAATTGTTAGTTGGGATAAAAGACTTAAATTAATTGAAATTACTATATTTCAAGTATTTATTAATTTTGGGAATGGCTTGTTTACAGCT # Right flank : CAACGCCAATAAAAGTGGTTCAAAAAAAGCTATCTAAATTATAAGAAATCAAGATATATTTTCCTATGAATATTAATACCTTTCTTTAAGTCAAATCCTCAACCTTTATTATAGAATCTATAATAAAGGTTTTTTAGTAATATCTCTTTAACATCCTATAGTAAATAACAATACCCTTCTCTTTTAAATATTTAATTCTTCTAAGTATTTATCTTTATTCTCTATAAACTCTATTGCTTGTCTATTCTGTCTTAAAGCTTCTCTACAAATTTCATCAAGCAGATCTTTTAATAATTCGCCTTTTAATTCTTCCCATTTTACATACTCTAAAGCCTTACCATTCTCTTTTACAGCTTCAAGGCTTATCTCTGGTGTTTGTTCTTTTACAAATTCTAAGGCTAATCCATTCTCCCTCACTGCTTCAAGACATATTTTTTCAGTTTGTTCATTCACGAATTTTAAATATAATCCATTTTGTTTTACTGCTAATACACAAAGTT # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTAAACCTTAACACTATGTGTATTTAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:73.33%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-1.60,-1.60] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [76.7-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 8 63558-63718 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037850.1 Clostridioides difficile strain Cd3 plasmid pCd3_2, complete sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ==================================== ================== 63558 30 100.0 35 .............................. GTAATTGGATATCCTCCTGTAAGCATCAACAGCAA 63623 30 100.0 36 .............................. TAAACTCTACCAGCTATAAAAATTCCTATCATTAGT 63689 30 96.7 0 ..................G........... | ========== ====== ====== ====== ============================== ==================================== ================== 3 30 98.9 36 ATTAAACCTTAACACTACATGTATTTAAAT # Left flank : ACATACTCTAAAGCCAATCCATTTTGCCTTACTGCTATTGAATATATATGATAAATTTCTCCTCTTGAAAATTTTTGTTTTAATTTTTCATATTTTATATATTCTAAAGCTAATCCATTTTGTCTTACTGCTTCTATATATATACTCTTAAGTTGTTTTTTGGTTAAGTCAATATCATCCATATTTAAGTGAGATAAACATCTCCAATATCGCTGAATCTCTTTAAAATAAAATACATAGTTTTTATTATCTATATTTTTTATAATATCCCCACATTTTTTATTTTTATATAATATATTATATCATTTATATTGTTTATATAAAATATTGTAAGTTAATTTATTTAGTGGTATAATTAGTTTATCCCAATCTAATTGATGTATATGTTGAAACACCTACATTATTATTTTTGACTTTCGATTGGGATAAAGAACTTAAAATAATTGAAATTGCAATATTGTAATCATTTTTTAATTTTGAGAAATGACTTGTTTACAGTC # Right flank : TAATAATAATAATAATATGTAATTTGAAACATAGGCAAACGTATTTGGGGATATCTAAATTAAAAGATATCCCCAACAAATCAAATCTATCATCTTTATTTTTTATATACTTAATTATTAGTTATTAACTCATATTACTTATGTGTGAATTCATCGATTATCATTTCAACTTCTGCCCTTAATACTACTAAATTAATTCCCCTTTAACAATTTCATTCATATTTACACCTCTTCAAATCTATATTTTTGAATAACATTAGGATATTTTTCTTTATCTACTTTAGATAAAAACATTTCAATAGGTCTTACATATTACTAAATTCTCATTGCTTTTATTTTTACGATGATAAAAGTTGCCTTTATTATCTTTATATATAATCATATCCTCATTTGTTTCTGTATGACGAGAAGCAAATCTATAATCAAATATATCTAATCTATCCCAATAACCTAAACTTTCAAAAACATTGTAAAGTTCATTGTCGGCAACAGGTATGCTA # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : ATTAAACCTTAACACTACATGTATTTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:80.00%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: R [0.00,-1.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-78.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.37 Confidence: LOW] # Array family : NA // Array 1 1007299-1008447 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1007299 29 100.0 37 ............................. GCAATAAAACCTGCTATTCTTGGTAGAAATTCATTTG 1007365 29 100.0 38 ............................. TTTGACGTGTTAAGTGATATAGATAGAAGAATATGTGA 1007432 29 100.0 38 ............................. TTTGTTTCTCTGTAACATGATTATCATTCATAATTAAA 1007499 29 100.0 37 ............................. AGAGGATAAATTGTTTACATAGTACCAGTTGGGTCTT 1007565 29 100.0 37 ............................. TTGCACTTGAATAGTTCTGAAGAACTTAAGAACTATG 1007631 29 100.0 36 ............................. AGCTTTACAATATCAAAGAAAAATTGAAACATCTAT 1007696 29 100.0 36 ............................. GGAAAATTATGGGAAAAGTTTACAGATATCATGAGA 1007761 29 100.0 36 ............................. TAAAAATAAACCTCCTAAACAAATATTTCACGCATA 1007826 29 100.0 38 ............................. CTTGTAATCGCTGAATAAAGATTTCTAGCTTCGTTATT 1007893 29 100.0 37 ............................. GACTCTGCCATCCCTGTAACGAACAGCCTTACAGCAA 1007959 29 100.0 38 ............................. ACTTATCTGTAACCCTTATATGTTCAAATTCATAGCCG 1008026 29 100.0 35 ............................. TATTTCTAGCGACTTAGTCGGTTGCTCCATTTAGC 1008090 29 100.0 37 ............................. TAGGATTGACACGTTACGACCGTGCAACGTTGGACTG 1008156 29 100.0 37 ............................. GCAATAATATTATCAATTTTAATATTTTGTTTCTCAT 1008222 29 100.0 37 ............................. GGTTCTGGCAAGTCACTTCATGTTGCTAGAGATATTT 1008288 29 100.0 37 ............................. GTTTTTTCTTCGTAACTTTGAGCCTTACATCCACAAA 1008354 29 100.0 36 ............................. AACAAAAAAGATACATCTGTAACTAATTTTTATACT 1008419 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ====================================== ================== 18 29 99.8 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTTATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : GACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATTAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCTTCTCTTGTTGGTCTTTCACCAGACTCTATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAATATATTTAATCCTTTG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.86%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 1220127-1220751 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 1220127 29 100.0 36 ............................. TTTTTAATTATGTTTATATTAATAAATCCAAAATAT 1220192 29 100.0 37 ............................. TCAAATCGTTAGACTGGAAGTATAAGTTGTAGTGACC 1220258 29 100.0 35 ............................. CCTATATTACTTAAATTATTACTTAAATACTGATA 1220322 29 96.6 37 ............G................ TATAAAACTTCTTGCATCTCTGCATTAAAAAAAGACT 1220388 29 100.0 38 ............................. ATAAGGAAGAAGAATAAAAAGGGGATGTTTTTATGGAA 1220455 29 100.0 38 ............................. TTATTATTATAATGGTCATGTATATCAAGTTTAGTAGC 1220522 29 100.0 37 ............................. TATTTCTTCCTTTTGCACATATACATCATCTAAATTG 1220588 29 100.0 40 ............................. ATGACTAAAATCATAGAAAAAGCACTAGAACCAGCTAAGG 1220657 29 93.1 37 .G.....................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 1220723 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================== ================== 10 29 95.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [66.7-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 3 1330997-1331820 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1330997 29 100.0 38 ............................. GTTTTTTAAACCGGAGTTGTTTTGATTATTTAAATCCA 1331064 29 100.0 38 ............................. AATTTTTTCACTTAATCTTCCTCCATTTTTTCTTTAAG 1331131 29 100.0 36 ............................. ATTATCAAAATTTCTTTTTTCTTCTTAACACAAAAA 1331196 29 100.0 38 ............................. GTTATAAGAGGTTTAAATACGATAAGAGTTAAAGAAGG 1331263 29 100.0 37 ............................. GGTGGTAGTGGAGAAGCTTCATCAGAAATTACAGCAG 1331329 29 100.0 37 ............................. GCTAATATGTTAAGTAAAAAATTATCCATACATATTC 1331395 29 100.0 36 ............................. GTACCAGTTCCACCAACACCGGAGCAGGAACAACCA 1331460 29 100.0 37 ............................. CTTATAACACTTCCTCTCTTAATTCTGCATTAAGCAG 1331526 29 100.0 37 ............................. ATGTAATAGAATGCAAAATGACACAGCCATATAATGC 1331592 29 100.0 38 ............................. TATGTAAAAAATAAAATAAATAAAAGTAACACTTTATA 1331659 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 1331725 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 1331792 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.4 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTATCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGATGGGAATGG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-83.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 4 1422482-1422905 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1422482 29 100.0 38 ............................. TAACCTTTTTATTGTTGTTGTTATTCTTATTGTTATTC 1422549 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 1422614 29 100.0 37 ............................. AGTACATATAATGAGTCTTTAACATCAGTTATGAAAG 1422680 29 100.0 36 ............................. GATTGTACTTTAGCGTCTGCACTAGCTTTGTCTATC 1422745 29 100.0 37 ............................. TATTTTACAGATGAACAATTACAGTTACTTCTTGAAT 1422811 29 86.2 37 ......T........AG...T........ AATGGAAGCAAGATAATTTTTAAAGGTATGGATAATT 1422877 29 82.8 0 ......T.........G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 95.6 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGGTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATTCTTTAAATCAATTTTGATGGAAATAGCTACTCTTGTATAAAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCAATATTTGCGATAAATTGAAGTTTAACAATTGGAATACAAGGTATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TTAAATAGAAAAAAGAAAGCACTTACTTAAATAGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTTGGAACACAAATAATATAATTATATTATGGAACACAAAAAGTGAGGTGAAACAATGAGTTCTAAAATGGGAAGACCAAAAGTTGATAATCCTAAAAATATTGATGTCAAAGTAAGATTTGATGAAAATACTCATAAAAAATTATTAGATTATTGTGAGAAAGAAAATCTTACTAGAACAGAAGCAATAAGAAAAGGAGTAGACTTACTTTTGGAGGAAGATAAGTAAAAAAGTAGCCCAACGCCGACCAAAGCATACTGGACTACTTAACCTAGAGTTATCTCTATATGAAATATTCTATCATGTAAAGATAACTCTTTCAAGATAATAAATCGAAAGGGTGATTTTTGTATGAATAATGAACTGATGAATTTTGAAAATAATGAATTA # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.78, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [61.7-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 5 1426527-1427478 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1426527 29 100.0 37 ............................. CTTTTTAAAAAAGCACGTCAATTACAATACTAAAATT 1426593 29 100.0 37 ............................. TTGAAAACTGCATGTTCTTTAACAAAAGCATCTAATT 1426659 29 100.0 37 ............................. GTATTACTCCCAATTATGAACATAGGATATAGTCTTT 1426725 29 100.0 37 ............................. TATAGTTTGCCATATGTTCCTGGTTCGTATGATTGGG 1426791 29 100.0 37 ............................. AAATTTAATATTACTGGAAAAGGAGAAATGGATATCG 1426857 29 100.0 36 ............................. TTTGTTATAAGAATATCGCCACCTTCCTTTTCTGGT 1426922 29 100.0 37 ............................. TTTTCTGCATCTTCTACTATGTTATATTCTTCTAATG 1426988 29 100.0 37 ............................. GCACATTTAACTTCAAGTCTTAGAGTATTATCTGCAA 1427054 29 100.0 36 ............................. TTCGTTCAACTTTTATCTTAGCTTCTCCTGCTACTT 1427119 29 100.0 38 ............................. GTACTAGAAAATGCACTACCTGCATTCATTCCTATACG 1427186 29 100.0 37 ............................. GTGCTATTTCCAACTTTTTTTTCAAGTTCTGAATACT 1427252 29 100.0 37 ............................. TAGTTAGTCCCATATCGTTATGGTACTGCATTAACGC 1427318 29 96.6 37 ...............A............. AGTGTAAAAGGCATTTTTTCAAATTGTGCATTGGTTT 1427384 29 89.7 37 .G.............A............G GCTAATGTTTGAGTATTTAAAAGCATCTGAGCAAACA 1427450 29 82.8 0 A...................AC.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 15 29 97.9 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : GAAAATAATAATCCTATCTCAATCAAAGGAGACAAGAAAAACTACTATATATTGTATAAAAATAATTAGATTTTAGTTTTTGGGGGGGTAATACAATGTATGAGAATTTACTTGATAGTATAGATATTGAAAAGAGAAAAGAAGAATTTAGAATTAAACTTTTGAAAATAAGAGAAACAGATATAGATATATATATATAATAAGATAGAAAGAATAGTATATAAACTTTCTGAGAAAAAATTAGAGAAAAATAATTAAATAAATAGATAAAGCACTTGGATATTATGTTGTTTCAAGTGCTTTATTTGGTATAAAATGGTATAATAAAAATATAGGAATTTTGCAGTGTTCGATTTTTCTACTTAAGTATAGTTTAACAATTGGAATACAAGGCATTGAGAAGGTTTGATAAGTGTTATCAATTGCACTATTACCCGCTCACTGCAAATTTGAGAAAGTTATATGTGTGTAAGTCTTGGAAATACACAATTTATTTTGGG # Right flank : TTAAAAATAATTCAAAAACACTTACAAATGAGTAAGTGTTTTTTTAATGAAAGGAGGTGATAATAATGTAAAAATTTTACGTATATAGTATAATAGTGCTATAAAATAAGTATTATGTGAGGTGATTGTTGTGTTTTGTTCAAATTGTGGTTATGAGATAACTGGTGCAGGCAAATTTTGCTCAAATTGCGGAACAGCTACATTAGCAGATAAAGTTAACAATGATGATTTATTTATAAATGTTCATGGAAAAGAATTAAATCTGACTAATATTTATAAAGAAACTAAAGGAGATAAAATCTTAGCAATTGATATTGCAATGAAGTTACTAGGGCTGGACATAAAAGAGTGTAAAAATATTATATATCCAGCTTTTAAAGAATTAAGTGAAAAAATAAATATCGAAGAGGAAAAAGAGATATTGAGGGAAGATGAGTATAAACAAACTAATGTACTTGAAGATGATGTTGCTCGTTGCCCTAGGTGTGGCTCTGTTTCAT # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 6 1565284-1566433 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 1565284 29 100.0 37 ............................. AGCAGTTAAAGTTGCAAACATCAACTTAACAGGAAAA 1565350 29 100.0 37 ............................. TCCAAAATTTTAACTTTTTCTTTTTCTAAATCTTTAT 1565416 29 100.0 38 ............................. TTTAAATTATAAAAAGTATACAAACGAAAATTATCAAC 1565483 29 100.0 36 ............................. TAACCTCTCCTGTACGTTTATCTATGTACTCATTAG 1565548 29 100.0 36 ............................. CTCTTTAGCGCTTCTTCAAGTTGTATTTGTGTATAA 1565613 29 100.0 36 ............................. TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA 1565678 29 100.0 38 ............................. AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC 1565745 29 100.0 36 ............................. TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT 1565810 29 100.0 37 ............................. CTTTTTTTATTAGTGAAAGGGGGTGGTTAAAATTAAA 1565876 29 100.0 37 ............................. TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA 1565942 29 100.0 40 ............................. GGTTTTAAAGACCCAGCAACGATAAAACAATATGTTGCAA 1566011 29 100.0 35 ............................. TGAACTTTAATCGGTTTTATACAACAATATAACGC 1566075 29 100.0 38 ............................. AATGAAGGTATAATAAAATTAACAGAAGAAACAAGAGA 1566142 29 100.0 37 ............................. TCACACATGAGCAATATCGAAACAGGCAAATCTACAG 1566208 29 100.0 36 ............................. TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT 1566273 29 100.0 37 ............................. CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA 1566339 29 100.0 37 ............................. TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT 1566405 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================== ================== 18 29 99.8 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTATCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 7 1957000-1956839 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1956999 29 100.0 37 ............................. TTACTAAACATCTTATAACTTCTCTGAGAGCCTCTAG 1956933 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 1956867 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGGAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCAATATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGA # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAAAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 8 2387103-2386422 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2387102 29 100.0 37 ............................. CTGACTCGGGAGCATATAATAAGTAATATCAAGAATA 2387036 29 100.0 37 ............................. TTCGTAAAATAACAATTGTCAGGAATATGAGAAGTTT 2386970 29 100.0 34 ............................. TTGGACTCAAAATATAAGTTAAAAAAATTTTTAA 2386907 29 100.0 36 ............................. ATTTTTGACGCTATGAAGAAATTTACTACAAAATTT 2386842 29 100.0 36 ............................. ACTTTTTTCATCCTCCCAAACCTCTTGTTCGCTGTC 2386777 29 100.0 38 ............................. AAGAAAATAAGTTTAAAAAAAGGTTTCATTATTATATC 2386710 29 100.0 36 ............................. CCAATTATGTACAGTTTAGTTACTGTGTTAAGTCTT 2386645 29 100.0 37 ............................. TCCTTTTATAAATATCTTCTGACATGTGTATATGCTT 2386579 29 96.6 36 ............................T CGGCTACAACGGTATAAATTAAATTTAGCAGGGTAC 2386514 29 93.1 36 A...........................T TGCTGTGATTTCAATAATAAAACAATTAATAATTGT 2386449 28 86.2 0 ................G....T.C-.... | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 97.8 36 GTTTTAGATTAACTATATGGAATGTAAAA # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAA # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 9 2641354-2640996 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 2641353 29 100.0 37 ............................. ATTTTTTTTATATATAAACTTCTAAACTTTTACAAAA 2641287 29 100.0 37 ............................. ACACTTCCAACAAGCATTGTAGGGTTGAAGTCTACAG 2641221 29 100.0 37 ............................. TAAATCGTATTTATAATTATATCTACACTTAGTAAAT 2641155 29 100.0 37 ............................. CCAATAGACCCTCCAATAACTCCAGATATTCCTTCTG 2641089 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 2641024 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAATTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAAA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 10 3144259-3143381 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP037849.1 Clostridioides difficile strain Cd3 chromosome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3144258 29 100.0 37 ............................. AATTTTTTCGGATATTTAATAATTTATTTTAAATTTA 3144192 29 100.0 36 ............................. CTCAACAGTATCTACAAGAACTTCTATATCTTCTAA 3144127 29 100.0 36 ............................. TAATTTAGGGTAACTTTTATATTATTTTCTTCTATC 3144062 29 100.0 37 ............................. TTGGTTGATATAGATATTAGTCCTATTATTTCTGCTT 3143996 29 100.0 37 ............................. AAATTAGATAATTTATAAGTCAATAAAATAAGTCCAA 3143930 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 3143864 29 100.0 36 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGA 3143799 29 100.0 36 ............................. ATGGATTTTAGTCGTTTTTAAATTTTTCTCGTAATA 3143734 29 100.0 38 ............................. ACCATTCATTTATATTTTTATCTGTATCTCTTAGCCAT 3143667 29 100.0 34 ............................. TAAGTTTTCTTAAAAAAGTACTTGCTTTAAATAT 3143604 29 100.0 37 ............................. TTGCCAATGTAACATCTTTAGATATTACAGTATCATT 3143538 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 3143473 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 3143409 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 95.8 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAATTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATAAACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.79, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [17-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [83.3-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //