Array 1 60730-62064 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000009.1 Clostridioides difficile strain LC4-009-8 NODE_9_length_122155_cov_39.0643, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 60730 29 100.0 35 ............................. AAACCTGGATTAGCTTTTATCCAACATTCTTCTCT 60794 29 100.0 35 ............................. GCTACTAGACCAGCTACCACTAACAGTACGAATGA 60858 29 100.0 36 ............................. ATAGTATAAACACTTTCAACCGTCCTTGAAAGTGTT 60923 29 100.0 37 ............................. TTACTTAGAAACAAATATATTGTTATTAACATACCAA 60989 29 100.0 38 ............................. TTAAGAGCATCTTCTATACCTATTTTAAAGTTTACTGG 61056 29 100.0 37 ............................. TTGCTATCTGAGTATTAATTTCTTCTATTTCTTGCCT 61122 29 100.0 37 ............................. ATTATAATATGTAACTATATCTAACTTTTATATTATC 61188 29 100.0 37 ............................. GTATGTCTTTTAAAGTTGCTAATACAACTGTTGGGTC 61254 29 100.0 36 ............................. TGAATATCACTACACCAAATTTTTAGACATTCAAAC 61319 29 100.0 37 ............................. TAATTAGTGGTGTTATAAGACTCATTTTTTGATTTTA 61385 29 100.0 37 ............................. TTGACTTACTATGTATTACTTCTAAGTTACTTATATC 61451 29 100.0 38 ............................. CAAGATATTTTTAATAAAATTTCTGAGCGAACTGTTTT 61518 29 100.0 36 ............................. AAAAATAGAACAAATTATGGAAAAATACTAGTAAAT 61583 29 100.0 37 ............................. TCTCATCACAACACTATATACATAGTAAATTAACATA 61649 29 100.0 35 ............................. GCATGTTAAAGTGGCTAATTGGAACTATGATTACA 61713 29 100.0 32 ............................. AGTCCAGACCCTAATCCTCCTGTTGACCCAGA 61774 29 100.0 36 ............................. ATAGTCAAAAGCAACATCATAATCACGTATATTATC 61839 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 61904 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 61970 29 93.1 37 ...............T.A........... CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 62036 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 21 29 99.5 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGTTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%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 1 204-363 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000120.1 Clostridioides difficile strain LC4-009-8 NODE_122_length_363_cov_84.986, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 204 29 86.2 37 GAA..........A............... AATGAATTTTGAGAATCTACATAGGATTGAACTACTA 270 29 100.0 37 ............................. ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 336 28 93.1 0 G...........................- | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 93.1 38 ATTTTATATTAACTATGTGGTATGTAAAT # Left flank : AGAATACTTTGTAAAGTTTGCTACATTATTACATAAATTAAAACAGGACAATGAAGAAAAATTTCAAGAGTATGCAGAGATATTGAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAATAAATAGATAAAGCACTTGGATATTATGATGTTTCAGGTGCTTTGTTTGTAAAAAAATGGTATAATGGAAATAGAG # Right flank : | # Questionable array : NO Score: 3.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:-1.5, 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 : ATTTTATATTAACTATGTGGTATGTAAAT # 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: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 96% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.77,0.41 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 35459-35960 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000014.1 Clostridioides difficile strain LC4-009-8 NODE_14_length_110223_cov_40.9275, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================================================================================================== ================== 35459 29 93.1 35 ...............T............T TTGCAGAAATATAATTTTATTGTTCTAAATTTAAT 35523 29 96.6 37 ............................T GTTAGTGACTATTCTAGAATGCAACAAGAAACAACAG 35589 29 100.0 36 ............................. TTTCTTTAATACTTTCCCATAACTTGCCTAAAAAAA 35654 29 100.0 37 ............................. CCAAGTTGAAAATTTAGAATCTATGTCTTTACACCAT 35720 29 93.1 37 .................CA.......... ATGGGAGCATTAACTTTAGCATTTGGAGCATTAGCAG 35786 28 82.8 117 ...............T....-.CT....T TTTGAACAAATACAGAAAACACTTATTTAAATAGTAAGTGTTTTTGTTGTGCTTAAATTTAATCAGTTATGTGAAATTATTATGGAATAATATTACAAATAATTAATGAAAAAATTA 35931 29 69.0 0 T..A.......TA...T..AA...A...T | A [35953] ========== ====== ====== ====== ============================= ===================================================================================================================== ================== 7 29 90.7 50 GTATTATATTAACTAAGTGGTATGTAAAG # Left flank : TGTAAAGAAGCTGTATTTGTAACTGAGGGAATTGAATATCAAGTGGCAGATGGTGATGGAAATGTGCTACAAACTTATCCAGTAGACGATTCAACTAGAATGCAACAAGAAACAACAGCAGGTACTAAATCAAAGGGAACAACAGCGTTTGCTATAACATCAGACTCAAATGCTGTAAAAATAATTGTAAAAGATAAAGTAAATAATAAGGTCATGGGAGAAATAAATGCTACTTTAGAATAAAAATAGTATTAGAGAAAAGAAAAAAGTTAACAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATAAATTGGATGTAATCATTGAAATTACTACAATATAAGCATGTTTTGTGGTGTGTGAAAAACACTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGCAAGAACTGGAAGTGCTCAATTTATTTTGGG # Right flank : TACATTTAATTTATAGTGAAGGAGAATGTTATGGCATTATTTGGGGATAAAGTTGATAAAGAAGATAAAAAGAAATTAAAAGAGCAAGAAGAAATACAAAAATTCATGAATAAGTATCAATTACAAGATTTAAATGAAAAAGATTTAACTATTTTAAGAAGAATAGCGGATGATTTATTTGCAACTGGACTTATAAAAACAGGATTAGCATTGAGTTTTACAAAAATAGAAGAACAAACTAAAATAAATTATCTTAGTGCTTTAGTTGAGCAAAACTGGATGATAATTAGACAATTATCTCAATTGAATAGCAATATAGAAAAACTTGTAGAAGATAAAAAATAATGGACTGAAAATAATAATACAGAAAACACTTACTTAAATAGTAGGTGTTTTTTTATATGAAATTTTGAGGGAGGGAGGGAAAAATATGTCCTTAGAATTAGGAACAGCAGTAGGTTATCTAGATTTAGATGGAGGGAAGTTTTTTAAAGCTCTTG # Questionable array : NO Score: 3.98 # Score Detail : 1:0, 2:3, 3:0, 4:0.54, 5:0, 6:0.25, 7:-1.37, 8:1, 9:0.56, # 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 : GTATTATATTAACTAAGTGGTATGTAAAG # 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:78.57%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.20,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [1-15] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%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 1 3424-4236 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000001.1 Clostridioides difficile strain LC4-009-8 NODE_1_length_260829_cov_41.8933, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3424 29 100.0 36 ............................. GAAATTAGTTGAACTATTGCTTGATATTCCATATAC 3489 29 100.0 37 ............................. CAATAAACCCAAAAACATTTAAAGAATACATGTTTAA 3555 29 100.0 36 ............................. TGCTTACGAATGGTTGGAATTACATCTATTGCTAAC 3620 29 100.0 38 ............................. CAATATGATTTTGCATTAGATTTTAGTGAAGGATTAGC 3687 29 100.0 35 ............................. TTTCTTTAAAACAGACATCAATTTCGTTATATCTG 3751 29 100.0 36 ............................. TTAGAATCAAAAGCACTTAATCCTAGTTCTTTCATA 3816 29 100.0 37 ............................. AGCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 3882 29 100.0 37 ............................. AAAAGTTGCACGCCTATTTGATTTTTCAATACATTAT 3948 29 100.0 36 ............................. GACAAAGCGACTATTACTATCTCAGGTGATAAAAAT 4013 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 4078 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 4143 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 4208 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.9 36 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATCATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATTGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGATGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [0-4] 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: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 167-2042 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000032.1 Clostridioides difficile strain LC4-009-8 NODE_32_length_47135_cov_40.2327, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 167 29 100.0 37 ............................. GTTACCACCAATAAGTCTAATATCAGTAGCTCCACCA 233 29 100.0 37 ............................. TTTTTTACACCTCCAAACACAGCTCCTATCAGCTCAG 299 29 100.0 39 ............................. GAACTTTTAAATATAAATTTTTATATTCTCCAACACTTC 367 29 100.0 37 ............................. GGTACTGCCTATGACAACAAAGTATATACAGTTAAAG 433 29 100.0 37 ............................. CCAACTAGGTGAAAGAAGCTTACCCAAAAGTATCACC 499 29 100.0 38 ............................. TAATTAATGGTGTTATTAAGTCAAATTTTTGATTTTGC 566 29 100.0 36 ............................. AAACTCAAAACTTTTTTATTATAGGTATTGATTTTT 631 29 100.0 37 ............................. TAAATATTCATTTCAAGCTCTTTCATAAGCTCATATT 697 29 100.0 38 ............................. GTAAGTCACTCTTTGCACGAGAGTGGCTTTTTGCTTTT 764 29 100.0 36 ............................. TTAGACGAGATTGTTTTTATAGATACAGGACTAGAA 829 29 100.0 36 ............................. GTTTTGAACGGGTATGACTAGTTTAGTTTCGTCAAG 894 29 100.0 37 ............................. AAATAACAATTATTAGGAATTTGAGAAGTATTATGTG 960 29 100.0 36 ............................. AATCACGAAAGTATTAACTACTTCTCGAACAGGCAA 1025 29 100.0 37 ............................. TTACTAACAGGAACATCAAAAGGAGGTTTAAAATCCG 1091 29 100.0 38 ............................. TCCCACACGTATAAATCAATTTGGTTTTCTGCTGTCGT 1158 29 100.0 37 ............................. TGCAAAAAAATCGGATAACCTAGTTCCTCTACAACTT 1224 29 100.0 37 ............................. ACGAGTCTAATATATTTTCGCTTCTTTTATTATTCTG 1290 29 100.0 37 ............................. TTTTTAAAGAATAGGTCACTAAAAAATTTTAATTTTG 1356 29 100.0 37 ............................. TGTGGATTTAAAGATGGAATAGTAACAAAGTATATTA 1422 29 100.0 37 ............................. GCAATATCTCCTCTTGTAATCGCTGAATAAAGATTTC 1488 29 100.0 37 ............................. CTATAACTTTTTCGCCAAAAACGTCTTTTATATCATT 1554 29 100.0 37 ............................. TCCAAAAGAACCTCTTTTTCTGTTTCATCAACTGTGT 1620 29 100.0 36 ............................. TTCTTTGAAAAGCATACTTTCTTTATTCTATCTTTA 1685 29 100.0 37 ............................. ATCGTAAATTTTTGTATAGGAGTCATACTTATAAGAG 1751 29 100.0 37 ............................. CAAAATGATTTGAAAATAACAAATATGTCTTTATTAA 1817 29 96.6 36 ............T................ TATAAATAAATAAACAGAAACAAAAATCAAATCTTT 1882 29 100.0 36 ............................. ATCATAAGAACCAGGGATATAGGGAAGGTCATAAGC 1947 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 2014 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ======================================= ================== 29 29 99.3 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGGG # Right flank : TTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCCTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTTATGATGGGAATG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 1 47355-47841 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000003.1 Clostridioides difficile strain LC4-009-8 NODE_3_length_237420_cov_47.0357, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 47355 29 100.0 37 ............................. TTTTTCATTTTTATTTTTTTAGTTGCATTTTCAACTG 47421 29 100.0 37 ............................. TATTTTTTAGCTTTTTCTCTATATGTACCAATATCAC 47487 29 100.0 36 ............................. TAGAAATACAATTCGGAACTTGTTTCTGTTGAATTT 47552 29 100.0 37 ............................. AGGTTTAAAAACCTCTGTTCTTCCACCATAATACCCA 47618 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 47684 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 47749 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 47813 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ===================================== ================== 8 29 92.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGATTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 5.87 # Score Detail : 1:0, 2:3, 3:0, 4:0.61, 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 [0-18] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-78.3]%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 1 19805-20095 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000043.1 Clostridioides difficile strain LC4-009-8 NODE_43_length_21207_cov_44.8743, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 19805 29 100.0 36 ............................. CATAAGCACTCAAAGGATTTGAAATATAAGAATAGG 19870 29 100.0 37 ............................. AGTATTCCTTCTATTAAATTAGATTGGACTCCAATTA 19936 29 100.0 36 ............................. TCATAAATATTCATTTTTTCTCTCCTTATTATTAAA 20001 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 20067 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 99.3 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : ATTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTA # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : 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:72.41%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-2.60,0.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 16796-17616 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000042.1 Clostridioides difficile strain LC4-009-8 NODE_42_length_21430_cov_48.099, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 16796 29 100.0 38 ............................. TAAACGAAATTAAAAATCTAATTGATAGTATTACAAGA 16863 29 100.0 36 ............................. CAAGTGGGCGAAAGATGATTATATACCAGAATCACT 16928 29 100.0 37 ............................. AAAACTGAATAATGCAGGTGAAAAGTTCTTAACAGAG 16994 29 100.0 37 ............................. GGGACAGACTCAACCCTACTATTTACAAGCTTTATAA 17060 29 100.0 37 ............................. AATATATTCTATTATTAAAAGTAATTGTATCGGGTAC 17126 29 100.0 37 ............................. TTTATCAAATACACATACATTTTAATATTTTCTTCAT 17192 29 100.0 38 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCTT 17259 29 100.0 38 ............................. CAGCTTTACATATCTATCTATGATTTTTGAATCTCCAT 17326 29 100.0 36 ............................. TCTAATTTAGTTGTTAAAATAAATTCCTTACCAATT 17391 29 100.0 37 ............................. TGAGCTGTTAGATAATATCCTAGCATTTTTATTTTTC 17457 29 100.0 36 ............................. TATGTACCTAGAAATTTAGAAAGTTTTGGAGAAATA 17522 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 17588 29 89.7 0 ......T.........G...T........ | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 99.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATGATATAATAATTGTAGCAAGGAAAATAAAATTGAAAAGCTAAGGGTGATTTTCTCATATAAACGCCAAATTCCAATATAGGAAGGAGGTGAATTTATATGTTAATTAACTTTTTATTGAGTATAGTAGCTGGAATTGTTTCAGCTTACATTTACGAGAAAATAAAAAATCACCCAAACGCCAATAAGGGTGATTTAAAGAAATAACTTTTAAATTCTAATCAATTAGAGAAATTCACCTTTTACAAAGTAAATTTTATCTCCTTGCTATTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTGATAAAATATGGCCTAACACTTGAAATATAATGTATTGAGGACGTATGATAAGTATTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAGACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTATTTTTGGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTAGTAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAGAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAAAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGTTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAGTATACGTCATTCCTTAAAA # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0.27 Confidence: LOW] # Array family : NA // Array 2 19310-19933 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000042.1 Clostridioides difficile strain LC4-009-8 NODE_42_length_21430_cov_48.099, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 19310 29 89.7 37 .AA..........A............... AATGAATTTTGAGAATCTACATAGGATTGAACTACTA 19376 29 96.6 37 A............................ ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 19442 29 100.0 38 ............................. GTATACTCAATAAAAAATTTATCACCATACTGTTACAC 19509 29 100.0 37 ............................. GAAGCATTATTTATTTTTTCTTCTATTATATCTATTT 19575 29 100.0 37 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCC 19641 29 89.7 38 ......G.........A...A........ ATTTGAACATTTGTTACAGCATTAGAGATATTAATTGC 19708 29 89.7 36 ......G.........A...A........ CCAACTGAATAAACAATAATTTTATCAATTTCTTTA 19773 29 89.7 37 ......G.........A...A........ CATCATAGTCACGTATATTTTCTTTAAAAGTCAAAGT 19839 29 89.7 37 ......G.........A...A........ TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 19905 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 94.5 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TGAGATTATTAAAAAGATAAAATTAGAAGAAAATGAAGTAAAAGGAGTTTGGGAAACAAATGGCTCTTGGACTGGGACTGTAAATAAGTATACAGAAAGTGTAATAGATAAGGTTAGAACTTGGATAGAGGAGAATAATAGACCAGCTAAGATTGAAGGTGAAAAGAAGAATTTTCATGTAGTGTATAAGATTGAGTAAATTTGATTGTATTAAATAGTTTAGTTTATTTTTGGGGGGATTAATACAATGTATGAGAATTTACTTAAGGAGTACAATTTAAAAACTGATGAAGATGCAGAATACTTTGTAAAGTTTGCTACATTATTACATAAATTAAAACAGGACAATGAAGAAAAATTTCAAGAGTATGCAGAGATATTGAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAATAAATAGATAAAGCACTTGGATATTATGATGTTTCAGGTGCTTTGTTTGTAAAAAAATGGTATAATGGAAATAGA # Right flank : TAAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAGACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAAAAAGAAGCACTTACTTAAATAGTAGGTGCTTTTGTTATTCTTTGCTAGATAAAGTAACAAGTTCATTAGGTGTACATTCAAGAACAAGACAAAGCTTTTCGAATAAATCTAATTTTATAGAACTTGTTTCATTGTTAGCTAATTTCATCATGTTAGGATAAGCTATACCTACTTCTTTAGCTAACCAATATCTAGTTCGACCTTTGGATTCAAGTAATTTATCAATGTTAAAATACATTTTTTCACCTCTTAAGTATATTATACAACAATTATATAATGTTTGCAATATATAATATGCAAACAATATAATTATATAATGTTGACATTATATAATGTGTACGATATAATATACTTAAGGAATAAAAAATAAGAGCCACTCGCCCCTACCAAGTTTGAGTAACTCTTATTGACATATACTACATA # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:0.72, 5:0, 6:0.25, 7:0.01, 8:1, 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 : GTTTTAGATTAACTATATGGAATGTAAAT # 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: R [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-73.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0.41 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 708-212 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000052.1 Clostridioides difficile strain LC4-009-8 NODE_52_length_14471_cov_46.4675, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 707 29 100.0 38 ............................. AGTATTTCAGCAATTTTACTTTTAATAACTTTATCAGC 640 29 100.0 37 ............................. TCAATTTACCGTTTTTTTCAAATCTCACAACATCAGA 574 29 100.0 37 ............................. CTATCGGCTTCTTGAAAAGCCTCATCTGCTCTATTTA 508 29 96.6 37 ......C...................... TTCATTAAATCCCCAACCGAATTATCTTTCAGCATTT 442 29 100.0 39 ............................. CATGCTGATAAGAATCTCTATGAACTTCGGAGGGAACCG 374 29 100.0 37 ............................. TTGGGTATTTTGCTAAAAATAAAGCTATTAAATTAGA 308 29 96.6 39 .C........................... CGTATTAACACCTGTTCGGCACTATCACAATAAACACAA 240 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 8 29 99.2 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTA # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [73.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 91823-90933 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000005.1 Clostridioides difficile strain LC4-009-8 NODE_5_length_191225_cov_40.5904, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 91822 29 100.0 38 ............................. AAAAAAGTCTCAATAACACCAGTCGAAGCAGAAAAATC 91755 29 100.0 36 ............................. CATTGTCAACATCATCTAATTTTTTTGTTACTGTAA 91690 29 100.0 37 ............................. TAGATTTTTTCACAAATAAACTTAACGAGTACAATGA 91624 29 100.0 39 ............................. TAGTTTTAAACTTTTTTTCTGGACATATTACAACATCAA 91556 29 100.0 37 ............................. TATCTTTAGCATTATATTTTTTAGTATCAGATGTGTG 91490 29 100.0 38 ............................. ATCTTTTAATTTTTATAACTAACTATTTACAAATTCAA 91423 29 100.0 38 ............................. TCTATCCACCCCCTTTTTTATAAATTTGCATTAAAAAA 91356 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 91290 29 100.0 38 ............................. AATAATGTTGATAAGACAGCAGAGGAAATAAAAGCTAG 91223 29 100.0 36 ............................. GTTATAGTCTTTTGGATAACTACCCAATTAGGATTT 91158 29 100.0 37 ............................. AAAAATATTATAGATACAAAAAAAGATTCAGAAAACA 91092 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 91027 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90961 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================= ================== 14 29 97.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTATGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAAA # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 50-206 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000054.1 Clostridioides difficile strain LC4-009-8 NODE_54_length_12427_cov_60.7138, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ==================================== ================== 50 29 96.6 36 G............................ GGAACATAAGGTAAATCATAAGAAACTCCAACAAGA 115 29 100.0 35 ............................. ATCACTTTTTCTCAAGCTCTTACAATGATGAAAAA 179 28 86.2 0 ....................-..TC...A | ========== ====== ====== ====== ============================= ==================================== ================== 3 29 94.3 36 ATTTTATATTAACTATGTGGTATGTAAAG # Left flank : TGGTATGTAAATACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAGG # Right flank : ATTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGATTGGGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGAGTTCCAAAACTATATAATTTAATTATGGAACTCAAAAGTGAGGTGATAACATGAGTCCTAAAAAAATAGGAAGACCTGTTGTAGGAAGCCCTAAAACTAATGATATTAAGGTTAGAGTAGATGATGAAACTAATGAAAAATTAGATGAATACTGTAAAAAAAATAACCTTACAAAAGCAGAGGCTATAAGACAGGGAATCCATTTACTTTTAGAAAAATAACAAAAATAGAGTGTTCGCCCGACCAAGTTTGAACACTCTATTTAAACCATAAGAAGTAATCTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATTAAATTTAGGAGGAGTATGTATGATGAATGATTTACAAATATTTAAAAGTGAAGATTTTGGAG # Questionable array : NO Score: 5.38 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 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 : ATTTTATATTAACTATGTGGTATGTAAAG # 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:78.57%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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [55.0-71.7]%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 2 1780-2595 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERB01000054.1 Clostridioides difficile strain LC4-009-8 NODE_54_length_12427_cov_60.7138, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 1780 29 86.2 37 .AG..........A.T............. TGACTTTCATATGCTCTTTTATCAGCTTCTGACATAA 1846 29 100.0 37 ............................. ACTGGTAAAACTCTTAATGTATATGTTATTTGTAAAG 1912 29 93.1 36 A..............T............. CAGCTTTTTCTTTTAAGCTACATAACTGATTATACT 1977 29 96.6 36 A............................ TTCATAACTTGATTTGATTCATAACTTGTAGCCATT 2042 29 89.7 38 .........C.....T............T TGTCTTATTTTATTATTAAAGTTTTCTTGTTCATTTGT 2109 29 93.1 37 ...............T.....G....... GAATTAGTAGAGTACAAAAATTTAAAGTCAGAATTTA 2175 29 93.1 37 ..A.........................T TCAAATATAAAAGACTTTACATCTTTGCCATCGATTG 2241 29 93.1 36 .............A.T............. AAGGAACTTTTAAGAAGAATGTTACTTGCAGGAGAA 2306 29 96.6 37 A............................ TCCACATCTGCATCTTTACTTATGTTATTTGTATTGT 2372 29 100.0 37 ............................. TCATTTATCATGTTCAATCTAGCATTCGTACTAGTCA 2438 29 100.0 36 ............................. AATGGAGCTATAGTAGACAGCATTGATACAAATATT 2503 29 96.6 36 A............................ TTTGCAATAGCTTGTTTCATAAGATATACGCATTGA 2568 28 86.2 0 ...............T....-..T....A | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 94.2 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TAAGAAGTTAGATATACAAGATAATGAAAAGTTAGTAGTACTAGAGAGTAAAAGAGGTTGGAGTGGAAGTGTCAATAAGTATTCACAGAGTGTAATAGATAAAATAAGACATTGGATAGGTGAAAACAATAAGCCTGCTAAGATACAAGGTGAGAAGAAGAATTTTCATGTGGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTATTTTAGTTTATTTTGGGGGGATTAATACAATGATTGAAGATTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAGTATTTTGTGAAGTTTGCTAATGCATTATATGAACTAAAACAGAATAGTGAAGAAAAATTTCAAGAATATGCAGAGATATTAAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAAATAATATAGATAAAGCACTTGAATATTATGATGTTTCAAGTGCTTTGTTTGTTAAAAAATGATATAATATAGGTAA # Right flank : ATTAAAAATAATGAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATAATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGATTATTTGGGGGTAAAGAACCATGCAGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATTTATGTAATAATTGTTTTATTAATTTCACAATATTTTCTAGAGAAAGATTAAAAGCAACTAGTGCAATGCAAGTATTAGCTGACCATGAAGGGATAAGAAAATTTATAAATTTTTCTAAAACAAATAGAGAACTATTAGCAAAATTTGTTGAGACAAATAGAATTAATAAATTTGTATCCATTGATGAAGATAATAACTTTATTAAAATATCAGATATTCGCAAAGGTGGAGATGTAATAGAGAATGTATATGCAATTGATGAAATTATGCAATTTGAACTTTTAGAAGATGGAGA # Questionable array : NO Score: 5.34 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.37, # 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:81.48%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [5-5] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [76.7-76.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.5,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], //