Array 1 18337-18873 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000013.1 Clostridioides difficile strain LC5-008-7 NODE_13_length_99542_cov_28.8206, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 18337 29 100.0 35 ............................. ACATATGTCGCTTCATCAGCAGGAACAGATAACAG 18401 29 100.0 37 ............................. ATTCTATATATAGAAGGAGCAGGAGACATAAGTATAA 18467 29 100.0 37 ............................. TCTTTTAACTTTTTCAATTCTTCATCTGAATAATTAA 18533 29 100.0 37 ............................. CCTAACAAAGTCCCTTCTCTATCCTTTTTCATATAGC 18599 29 100.0 37 ............................. CTTCTTCGAGTGAACTTTTATATTGTCTTATTTCTTT 18665 29 100.0 37 ............................. AGTTTAGACTTTAGGTTTAAGGGGATATTCAGTTGTT 18731 29 100.0 36 ............................. GTGTCTTTTTCTTTTCAAAACCAACCAATACGAAAT 18796 29 100.0 18 ............................. TTTTCATCTATTGCATTA Deletion [18843] 18843 29 79.3 0 A.G.A...A........C.........G. | AG [18850] ========== ====== ====== ====== ============================= ===================================== ================== 9 29 97.7 34 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATCATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGTGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTATTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATG # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [73.3-80.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 58327-56720 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000015.1 Clostridioides difficile strain LC5-008-7 NODE_15_length_62627_cov_27.8645, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 58326 29 100.0 36 ............................. TATAAATAAATAAACAAATCATTAGTTTTGAAACGA 58261 29 100.0 36 ............................. GAATTACCAGAATCGACCTCACAAGTTACTTTAAAA 58196 29 100.0 36 ............................. TATGTTTTTAGTTGGTTTTTTAAACTATTTAAAATG 58131 29 100.0 37 ............................. GTGAATTTTGTAGTTTTTGTTGCATCAAACTCTTTTT 58065 29 100.0 37 ............................. AAAAAATGGGCTGATGAAATGGGTATAACAAGAGAAA 57999 29 100.0 37 ............................. TATATAAGCGGAAATAGAATAGAAGTTGATTATGTGC 57933 29 100.0 37 ............................. TGAAAAAGAAGGCTAAAAATGCCTTGGCAATAGCTGG 57867 29 100.0 36 ............................. CTCTTTAGCGCTTCTTCAAGTTGTATTTGTGTATAA 57802 29 100.0 36 ............................. TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT 57737 29 100.0 37 ............................. CTTTTTTTATTAGTGAAAGGGGGTGGTTAAAATTAAA 57671 29 100.0 37 ............................. TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA 57605 29 100.0 37 ............................. CATAAAACTTTTGTGTATTTCTACACTCAAAAAGACT 57539 29 100.0 37 ............................. TCGGCTATATTGTATGTATTGATAGCGCACTTTTTAA 57473 29 100.0 36 ............................. ATTTTAAATTTTCAAAGATAAATTACACTAAGGCGG 57408 29 100.0 37 ............................. TTCCTATTATAATATGTAACTATATCTAACTTTTATA 57342 29 100.0 37 ............................. TGCTCCACGACCTTGTGGTTCCATAGCAACTATATAC 57276 29 100.0 36 ............................. ATTACTAGATGTAACTATCTCAACTTTGTTTAAATC 57211 29 100.0 40 ............................. GGTTTTAAAGACCCAGCAACGATAAAACAATATGTTGCAA 57142 29 100.0 35 ............................. TGAACTTTAATCGGTTTTATACAACAATATAACGC 57078 29 100.0 38 ............................. AATGAAGGTATAATAAAATTAACAGAAGAAACAAGAGA 57011 29 100.0 37 ............................. TCACACATGAGCAATATCGAAACAGGCAAATCTACAG 56945 29 100.0 36 ............................. TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT 56880 29 100.0 37 ............................. CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA 56814 29 100.0 37 ............................. TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT 56748 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================== ================== 25 29 99.9 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTATCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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 : 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 606644-606024 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000001.1 Clostridioides difficile strain LC5-008-7 NODE_1_length_1090643_cov_30.5014, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 606643 29 100.0 35 ............................. TTAGTTCCACTATAAAAATAAATCAAAACTAAAAC 606579 29 100.0 36 ............................. AGTTTAGGTTTTATATCTGCTTTATTAGTTTTTCTA 606514 29 100.0 37 ............................. CTAAAATTATGTTGATTTTTTAGTGGAGTTGTGTTAT 606448 29 100.0 37 ............................. GTATTAATTAAACCTAAACAGGTTACAACATCTAACA 606382 29 100.0 37 ............................. GCGCTTAACTTTCTCTTTCACTTCTATTCCTCCATTT 606316 29 100.0 37 ............................. AGAATAGAATCTAACATATATACACCTCCAATTAAGG 606250 29 100.0 37 ............................. CACTAGGACAGGCACTCCACTTCTAAAGCTTATACTT 606184 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 606117 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 606052 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 98.6 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACATAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAGGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTTGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGCGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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: R [4-0] 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 2 850488-850328 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000001.1 Clostridioides difficile strain LC5-008-7 NODE_1_length_1090643_cov_30.5014, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 850487 29 100.0 37 ............................. TTACAAGCCACAAACATAATAGCGCAAGTATAAAGAA 850421 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 850356 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCTTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTGACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTATATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAAA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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:83.33%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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 2650-2876 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000024.1 Clostridioides difficile strain LC5-008-7 NODE_24_length_11527_cov_31.3496, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 2650 29 100.0 37 ............................. TTATCTGCGTCTTCTGAAATAGCATACTCTTCAAGAG 2716 29 100.0 36 ............................. GTTGTAAGAAGTATCATTCTATTTTTTAATCTTTCT 2781 29 100.0 38 ............................. CTTATTTATAGTTGGGAAAATGGTTATAAATGTGGTAC 2848 29 96.6 0 ............................G | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 99.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATTATATGTTATAATAATTGTAGCAAGGATAATAATCGAAAGTGCGAAGGGTGATTATTTTCATATTAAACGCCAAATTCCAAATAAGGAAGGAGGTGAAATTATATGATAGTTTTTTTATTAAGCATACTAGCTGGTGTTATATCAGCTTATATTTATGACAAAATAAAAAATCACCCAGACGCCAATAAGGGTGATTTAAAAAAATAATATTTTCACTTAACAACTGAAAATAATCACTCTTTGTAGGAGTAAATTATTTCCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAAATGTAGAGATTTTGCAGTGAGCGATATTTGTTACAAAATATGGCTTAACACTTGAAATCTAAGATGTTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : GCAACAAGAACAACAGTTGATTTTACCTTTTCTAGCCAACGTTTTATATTAACTATGTGGAGAAAAACTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTACCTTATATTGGAAATTTGTATAAAGATAAATTATAATGATTATATAGATATTTATGAGGGGGATTACGCTATGGGATTATTCAAAAAGAAGGAAAAAGAAAAAGGCATTTGTATAATTTGTGGTAATGAAGGAAATGCTTTAAAAACTGTAGATAATGAGTTTTTATGTGATGAATGTTTTGAAAAATGCAGAGGTGAAATAGCTGTTCTTGGTAAAGGACTAAAAAAACTGACAAGTAAGGAAGTTATGAATGCTGTAGAGTTATGTAGAGATAATTTTGGAAATTTTGTTAAAAACACATTAATACAAATTGTATATTTAGGAGGACATCCTTTATTTAATAGAGAAGAAATGATTTGTCTTTTAATTAGAAGTGACAAGAT # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [61.7-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 2 5544-5769 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000024.1 Clostridioides difficile strain LC5-008-7 NODE_24_length_11527_cov_31.3496, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5544 29 89.7 37 .AA..........A............... AATGAATTTTGAGAATCTACATAGGATTGAACTACTA 5610 29 96.6 37 A............................ ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 5676 29 100.0 36 ............................. TACACATTTTCTCAAATTTGGACTTCAATTAAAAAT 5741 29 86.2 0 ....................AC.TA.... | ========== ====== ====== ====== ============================= ===================================== ================== 4 29 93.1 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TGAGATTATTAAAAAGATAAAATTAGAAGAAAATGAAGTAAAAGGAGTTTGGGAAACGAATGGTTCTTGGACTGGTACTGTAAATAAATATACAAAGAGTGTAATAGATAAGGTTAGAACTTGGATAGAGGAGAATAATAGACCAGCTAAGATTGAAGGTGAAAAGAAGAATTTTCATGTAGTGTATAAGATTGAGTAAATTTGATTGTATTAAATAGTTTAGTTTATTTTTGGGGGGATTAATACAATGTATGAGAATTTACTTAAGGAGTACAATTTAAAAACTGATGAAGATGTAGAATACTTTGTAAAGTTTGCTACATTATTACATAAATTAAAACAGGACAATGAAGAAAAATTTCAAGAGTATGCAGAGATATTGAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAATAAATAGATAAAGCACTTGGATATTATGATGTTTCAGGTGCTTTGTTTGTAAAAAAATGGTATAATGGAAATAGA # Right flank : TTAAAAATAATCAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTTATATAGTATAATAATCTTATAAAATTATTGTGCTAGGGGGATTTGTTATGTTTTGTTCGAATTGTGGTGCAGAAATCACAGGCGTAGGCAAGTTTTGTTCAAGTTGTGGGGTTGCTGTAGAAACTGAAATTATTGAAGATAATAATATTAAATCAAATGACCTAATCGTTGATGCAAATGGAATAGAAATAAATATGACTGAAATTTATAGAAAATATAGAAAAGAAAAAGTAAATGCAATAAAAAATGTAATGGAAATAAGTGGTTTGAATATAAAGGAAGCAAAAAAAATAGTGGATTCTTCCTTTGAAGAGTTAAAAATCAATTTTATTGATGATACTATGAGCAATTCAGAAAAGGAAAAAATAATAAATACTCAAAATAGAAAAAATAATATTGAAAAAGCTCAACAAGAATC # Questionable array : NO Score: 3.70 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:-1.5, 6:0.25, 7:0.01, 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 : 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:82.14%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [3-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-76.7]%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 1 257894-256171 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000002.1 Clostridioides difficile strain LC5-008-7 NODE_2_length_422963_cov_34.3651, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 257893 29 100.0 36 ............................. GTGATAGATTATGGTGGTTTGTTTAATCCTATCGCA 257828 29 86.2 25 ....................C..T.T.T. TTTATTTTTCATAAAAAAAGATATA AC [257806] Deletion [257775] 257772 29 100.0 36 ............................. GTGATAGATTATGGTGGTTTGTTTAATCCTATCGCA 257707 29 100.0 37 ............................. TGTAAAAAGTTACTATTTCAGTCTCTTTACTCTGCAA 257641 29 100.0 37 ............................. AATTATTTATATTATCTAAAGTAACTTTAATATTATT 257575 29 100.0 38 ............................. TAAAAAGTTTAATATAAATATCTTCAGCCATATGTAAA 257508 29 100.0 38 ............................. TCCAAAACGGACTTGGTGTTAAGAGCTGTATAAGAAAC 257441 29 100.0 37 ............................. ACATTTTCAGCTAAAATTTTAAAAGGTGTATTAGCAA 257375 29 100.0 37 ............................. TTGGTTGATATAGATATTAGTCCTATTATTTCTGCTT 257309 29 100.0 37 ............................. AAATTAGATAATTTATAAGTCAATAAAATAAGTCCAA 257243 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 257177 29 100.0 36 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGA 257112 29 100.0 36 ............................. ATGGATTTTAGTCGTTTTTAAATTTTTCTCGTAATA 257047 29 100.0 38 ............................. ACCATTCATTTATATTTTTATCTGTATCTCTTAGCCAT 256980 29 100.0 34 ............................. TAAGTTTTCTTAAAAAAGTACTTGCTTTAAATAT 256917 29 100.0 36 ............................. TCTTGTGCTCCTTGCGCAATCAAGTTATAAGACTCT 256852 29 100.0 37 ............................. GAAAATAATCTTAATGAAGTAGATTGGAATGAGGTTA 256786 29 100.0 36 ............................. TCTTTTGATTTAGCGTTGTTTGTCCGGAATTTTAAA 256721 29 100.0 37 ............................. TCGGGCTAGAATGTATTTTAAACCCTAGTTCATTGAA 256655 29 100.0 36 ............................. TTTCTAATATCGCTATTTAAACTCAATGCTTCATTT 256590 29 100.0 37 ............................. TCAGAACAAATTAAATATGTTTCGTTTTCCATGTAAG 256524 29 100.0 38 ............................. AGAACTTTTTTATATTAGAAGTACTTGACATGATTGCC 256457 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 256394 29 100.0 37 ............................. TTGCCAATGTAACATCTTTAGATATTACAGTATCATT 256328 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 256263 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 256199 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 27 29 97.3 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAATTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATAAACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:-0.00, 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 [17-8] 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], // Array 1 87120-86106 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000004.1 Clostridioides difficile strain LC5-008-7 NODE_4_length_277552_cov_33.1169, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 87119 29 100.0 37 ............................. ATGAACTTCGGAAGGAACCGTACCTTCATAAATTACA 87053 29 100.0 36 ............................. CTAAAATTATGTTGATTTTTTAGTGGAGTTGTGTTA 86988 29 100.0 37 ............................. TAACATATTTTTCCAATAGATTTAGTTTTTTATTTAA 86922 29 100.0 38 ............................. ACGAAAAACTAGTTAAAAACTGCATCAAAGTATTGATA 86855 29 100.0 36 ............................. AACAAACAGCCCAACTGAAATGCCAATCGCAACACA 86790 29 100.0 38 ............................. TAAGTTGGTTGTATATGTATTGAATCTGGTTCTAATGA 86723 29 100.0 38 ............................. ACAAACAAGTGTAGGATAAACTTTCCTTGCCCAGTATA 86656 29 100.0 37 ............................. TAACAAAATTTGCGAGTACACTTATTTCTAATATATC 86590 29 100.0 36 ............................. ATAAGAGTGGTTTAAGAAAATAAGTTATTTTTCAAA 86525 29 100.0 36 ............................. TGACTCGTGCTATTTTTTTTACACGCCTAAGAGGTA 86460 29 100.0 36 ............................. CGAAAAATCTAGGAAAAACTATTGTAAAAGCGTTTA 86395 29 100.0 37 ............................. TTTGATTACATGGGCAGTTTTTTATTATAGAGTGTTA 86329 29 100.0 35 ............................. TATGCTGATGGAACGGGTGTCTTTCGTACTGCTAG 86265 29 100.0 37 ............................. AAAAATCTTATTAAAGATTATTCAAAGTCTTTTGATT 86199 29 100.0 36 ............................. AACAAAAAAGATACATCTGTAACTAATTTTTATACT 86134 29 96.6 0 ............T................ | ========== ====== ====== ====== ============================= ====================================== ================== 16 29 99.8 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : CTATTAACTTATGAAATATCTGTAAATGAGCAGATATTTCATAAGTTAATATTTATTGTTTACATAAAATATTTGGTAAAAATAAGTAAGTTTTATATGTTATAATAGTTGTAGCAAGAATAATAATCTAAAGTGGCAAGCATGTCAGCTGGTGTTATATCAGTTTATATTTATGATAAAATAAAAATCTCCCAAACGCCAATAAGAATGATTTAAAAAAATAATATTTTCACTTAAAAATAATCACTCTTTATAGGAGTAAATTATTTTCTTGATTTTATTATACTACAAATTGGTACAGATATTTAAAAATAATATATTCATAATATTATAAATAGTTTTGCAGTGAGCGATATTTTTGATAAAATAGGGCTTAACAGTTGAAACATAAGGCATTGAGGGTATATGATAAATATTATCATTTGCACTACTCGTGGTTCACTGCAAATTTGAGAGAATTGTATAGATGTAAGTGTTGGAAATACTCAATTTATTTTGGG # Right flank : ACAGATATAATGTCAAAATAAGGTTAGGACTTTTAAAAGCATAGCCATATCAGTAAAAATTTAATTATCATTTAAAAATAAATTTTTATTTAAAGAATACACATAAATATTTCCAGACTCAACTCTCTTAAACTATTTTCATATCTTTTAGTAGATACCTTTGTTGTTTTTTAATCTTTAGCAACTTGTTCTTGAGTGAACCTCTTATTTTTTCTAAGTTATTTCAAGCTTTTCAAAAAATTCTCTATTTATATTCATCACACATATAATACAATCAATTCAGTTTTAATTGCCAATATTTAGTTTTTCTGTATCTGATAAACCAAGAATATAATCAGTATATAAACCAAAAATTTTAGCAAATATTATTAACCCATCGTCTCTTGTTGGTATTTCACCAGATTCTATTCATAACACTTGTATTTATATTTGTTTTTTCAAGCAATTCTTTTTGAGAACTATTCATATTTTCCCTAGTATATTTAATCCTTTGATTTACA # 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: 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-70.0]%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], // Array 1 111416-112370 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERP01000007.1 Clostridioides difficile strain LC5-008-7 NODE_7_length_203641_cov_30.2228, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 111416 29 100.0 37 ............................. TCTGAATACGGAACATAAATAGCAACAGCACCAGAAT 111482 29 100.0 36 ............................. GTTATTGCTCCTGTTTCTGCTGAACTTTTCAATTTG 111547 29 100.0 39 ............................. AAGATACTTTAAGATTAGAGGTTAAGTGTGCAAATTATG 111615 29 100.0 38 ............................. AAACTTTACTTTTTAAAGTAACATTTTTTAAAAATAGA 111682 29 100.0 37 ............................. CCATCAACCTTATCAGAAACTTGACCATCCCAATCAT 111748 29 100.0 38 ............................. AAACTTAAAACTTTTTTATTATAAGTATTGATTTTTTA 111815 29 100.0 37 ............................. AAGGTCGTCTAGACCTAATTTTTTCTTTGCATCTTCT 111881 29 100.0 38 ............................. TATGGAAGTATAGATTATACTAGAAATAGGCTGATAGG 111948 29 100.0 36 ............................. CTCTGTGCAAGAGAGTGACTTAGATGTTGAGCTTAA 112013 29 100.0 37 ............................. ATTCTTTTTGAGTGAAGTTTAATTCTTTTCTAAGTGT 112079 29 100.0 37 ............................. GACTCTAGTATTATTTGAGCTAAAGAAATTGAAGCTG 112145 29 100.0 37 ............................. CCACCAACTCTACATAATAGGTCTCCTGCTTTCCATT 112211 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 112276 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 112342 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 97.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTATGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAA # 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 : 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: R [63.3-75.0]%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], //