Array 1 1186-895 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000015.1 Clostridioides difficile strain LC4-009-7 NODE_15_length_115410_cov_42.5399, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1185 29 100.0 36 ............................. CATAAGCACTCAAAGGATTTGAAATATAAGAATAGG 1120 29 100.0 37 ............................. AGTATTCCTTCTATTAAATTAGATTGGACTCCAATTA 1054 29 100.0 36 ............................. TCATAAATATTCATTTTTTCTCTCCTTATTATTAAA 989 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 923 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 99.3 37 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATATAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGAAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGTTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGACAAATTGAGGTTTAGCAGTTGAAATATAAGGCATTGAGAATATATAATAAGTATTATCAATTGCACTATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGG # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAGAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 94% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] 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 [0,5.28 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 74707-75662 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000018.1 Clostridioides difficile strain LC4-009-7 NODE_18_length_85551_cov_43.1654, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 74707 29 100.0 37 ............................. ATAGTTCCTAATTTAGAAAGAGTACTCAAAAGCTACA 74773 29 100.0 38 ............................. AAAAAAGTCTCAATAACACCAGTCGAAGCAGAAAAATC 74840 29 100.0 36 ............................. CATTGTCAACATCATCTAATTTTTTTGTTACTGTAA 74905 29 100.0 37 ............................. TAGATTTTTTCACAAATAAACTTAACGAGTACAATGA 74971 29 100.0 39 ............................. TAGTTTTAAACTTTTTTTCTGGACATATTACAACATCAA 75039 29 100.0 37 ............................. TATCTTTAGCATTATATTTTTTAGTATCAGATGTGTG 75105 29 100.0 38 ............................. ATCTTTTAATTTTTATAACTAACTATTTACAAATTCAA 75172 29 100.0 38 ............................. TCTATCCACCCCCTTTTTTATAAATTTGCATTAAAAAA 75239 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 75305 29 100.0 38 ............................. AATAATGTTGATAAGACAGCAGAGGAAATAAAAGCTAG 75372 29 100.0 36 ............................. GTTATAGTCTTTTGGATAACTACCCAATTAGGATTT 75437 29 100.0 37 ............................. AAAAATATTATAGATACAAAAAAAGATTCAGAAAACA 75503 29 100.0 36 ............................. AAGTCACACCGCCCTCCACACGACACTATAATAATA 75568 29 93.1 37 .............C.........A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 75634 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================= ================== 15 29 97.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGCGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTATGTCTAAATAGATTGTAGTTCTTCTTGTTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAATGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGCATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTCGCATCATTTAA # 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], // Array 1 257407-256594 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000001.1 Clostridioides difficile strain LC4-009-7 NODE_1_length_260344_cov_43.0454, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 257406 29 100.0 36 ............................. GAAATTAGTTGAACTATTGCTTGATATTCCATATAC 257341 29 100.0 37 ............................. CAATAAACCCAAAAACATTTAAAGAATACATGTTTAA 257275 29 100.0 36 ............................. TGCTTACGAATGGTTGGAATTACATCTATTGCTAAC 257210 29 100.0 38 ............................. CAATATGATTTTGCATTAGATTTTAGTGAAGGATTAGC 257143 29 100.0 35 ............................. TTTCTTTAAAACAGACATCAATTTCGTTATATCTG 257079 29 100.0 36 ............................. TTAGAATCAAAAGCACTTAATCCTAGTTCTTTCATA 257014 29 100.0 37 ............................. AGCTTTTTAGCTTCGTCTACTACTTTATAAGCAAAGC 256948 29 100.0 37 ............................. AAAAGTTGCACGCCTATTTGATTTTTCAATACATTAT 256882 29 100.0 36 ............................. GACAAAGCGACTATTACTATCTCAGGTGATAAAAAT 256817 29 100.0 36 ............................. GATGAACAATAAAACAATCATCTAAAGACGAAGAAA 256752 29 100.0 36 ............................. GTTCCTGTTGTGTTTTTTACTAATCCCATTTTATAT 256687 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 256622 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.9 36 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATCATTAGAAAAAATTAGTAAAAACCTCTTTTCTGTAACTCGTTACAATATTATTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATTGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGATGTATACTATCGTATATCAATTATAATATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGAT # 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: 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 1 64885-63678 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000022.1 Clostridioides difficile strain LC4-009-7 NODE_22_length_64931_cov_40.7354, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 64884 29 100.0 36 ............................. ATAGTATAAACACTTTCAACCGTCCTTGAAAGTGTT 64819 29 100.0 37 ............................. TTACTTAGAAACAAATATATTGTTATTAACATACCAA 64753 29 100.0 38 ............................. TTAAGAGCATCTTCTATACCTATTTTAAAGTTTACTGG 64686 29 100.0 37 ............................. TTGCTATCTGAGTATTAATTTCTTCTATTTCTTGCCT 64620 29 100.0 37 ............................. ATTATAATATGTAACTATATCTAACTTTTATATTATC 64554 29 100.0 37 ............................. GTATGTCTTTTAAAGTTGCTAATACAACTGTTGGGTC 64488 29 100.0 36 ............................. TGAATATCACTACACCAAATTTTTAGACATTCAAAC 64423 29 100.0 37 ............................. TAATTAGTGGTGTTATAAGACTCATTTTTTGATTTTA 64357 29 100.0 37 ............................. TTGACTTACTATGTATTACTTCTAAGTTACTTATATC 64291 29 100.0 38 ............................. CAAGATATTTTTAATAAAATTTCTGAGCGAACTGTTTT 64224 29 100.0 36 ............................. AAAAATAGAACAAATTATGGAAAAATACTAGTAAAT 64159 29 100.0 37 ............................. TCTCATCACAACACTATATACATAGTAAATTAACATA 64093 29 100.0 35 ............................. GCATGTTAAAGTGGCTAATTGGAACTATGATTACA 64029 29 100.0 32 ............................. AGTCCAGACCCTAATCCTCCTGTTGACCCAGA 63968 29 100.0 36 ............................. ATAGTCAAAAGCAACATCATAATCACGTATATTATC 63903 29 100.0 36 ............................. CAACATGTCAGTAATATTGAAACAGGAAATTCGAGT 63838 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 63772 29 93.1 37 ...............T.A........... CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 63706 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ====================================== ================== 19 29 99.5 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TGGTATGTAAATGCTACTAGACCAGCTACCACTAACAGTACGAATG # Right flank : TTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTATTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAATTTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAGC # 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: 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-46.7]%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 45575-46070 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000024.1 Clostridioides difficile strain LC4-009-7 NODE_24_length_58814_cov_46.4745, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 45575 29 100.0 38 ............................. AGTATTTCAGCAATTTTACTTTTAATAACTTTATCAGC 45642 29 100.0 37 ............................. TCAATTTACCGTTTTTTTCAAATCTCACAACATCAGA 45708 29 100.0 37 ............................. CTATCGGCTTCTTGAAAAGCCTCATCTGCTCTATTTA 45774 29 96.6 37 ......C...................... TTCATTAAATCCCCAACCGAATTATCTTTCAGCATTT 45840 29 100.0 39 ............................. CATGCTGATAAGAATCTCTATGAACTTCGGAGGGAACCG 45908 29 100.0 37 ............................. TTGGGTATTTTGCTAAAAATAAAGCTATTAAATTAGA 45974 29 96.6 39 .C........................... CGTATTAACACCTGTTCGGCACTATCACAATAAACACAA 46042 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ======================================= ================== 8 29 99.2 38 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TTGTATCCAAAAAATTACAATAATCATACGAACTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAA # 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 [0-1] 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 [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 120399-119897 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000003.1 Clostridioides difficile strain LC4-009-7 NODE_3_length_220721_cov_42.1028, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================================================================================================== ================== 120398 29 93.1 35 ...............T............T TTGCAGAAATATAATTTTATTGTTCTAAATTTAAT 120334 29 96.6 37 ............................T GTTAGTGACTATTCTAGAATGCAACAAGAAACAACAG 120268 29 100.0 36 ............................. TTTCTTTAATACTTTCCCATAACTTGCCTAAAAAAA 120203 29 100.0 37 ............................. CCAAGTTGAAAATTTAGAATCTATGTCTTTACACCAT 120137 29 93.1 37 .................CA.......... ATGGGAGCATTAACTTTAGCATTTGGAGCATTAGCAG 120071 28 82.8 117 ...............T....AC.-....T TTTGAACAAATACAGAAAACACTTATTTAAATAGTAAGTGTTTTTGTTGTGCTTAAATTTAATCAGTTATGTGAAATTATTATGGAATAATATTACAAATAATTAATGAAAAAATTA 119926 29 69.0 0 T..A.......TA...T..AA...A...T | A [119903] ========== ====== ====== ====== ============================= ===================================================================================================================== ================== 7 29 90.7 50 GTATTATATTAACTAAGTGGTATGTAAAG # Left flank : TGTAAAGAAGCTGTATTTGTAACTGAGGGAATTGAATATCAAGTGGCAGATGGTGATGGAAATGTGCTACAAACTTATCCAGTAGACGATTCAACTAGAATGCAACAAGAAACAACAGCAGGTACTAAATCAAAGGGAACAACAGCGTTTGCTATAACATCAGACTCAAATGCTGTAAAAATAATTGTAAAAGATAAAGTAAATAATAAGGTCATGGGAGAAATAAATGCTACTTTAGAATAAAAATAGTATTAGAGAAAAGAAAAAAGTTAACAGGTAAAATATTCTAAATGAATAGAATAAATTAATGTTAATTTATGATATAATGATAATATAGATATTTTGCAGTGTACGATTTTTTATATAAATTGGATGTAATCATTGAAATTACTACAATATAAGCATGTTTTGTGGTGTGTGAAAAACACTACTGGTTACTCACTGCAATTTTAATATGGTTTTATATGTGCAAGAACTGGAAGTGCTCAATTTATTTTGGG # Right flank : ACATTTAATTTATAGTGAAGGAGAATGTTATGGCATTATTTGGGGATAAAGTTGATAAAGAAGATAAAAAGAAATTAAAAGAGCAAGAAGAAATACAAAAATTCATGAATAAGTATCAATTACAAGATTTAAATGAAAAAGATTTAACTATTTTAAGAAGAATAGCGGATGATTTATTTGCAACTGGACTTATAAAAACAGGATTAGCATTGAGTTTTACAAAAATAGAAGAACAAACTAAAATAAATTATCTTAGTGCTTTAGTTGAGCAAAACTGGATGATAATTAGACAATTATCTCAATTGAATAGCAATATAGAAAAACTTGTAGAAGATAAAAAATAATGGACTGAAAATAATAATACAGAAAACACTTACTTAAATAGTAGGTGTTTTTTTATATGAAATTTTGAGGGAGGGAGGGAAAAATATGTCCTTAGAATTAGGAACAGCAGTAGGTTATCTAGATTTAGATGGAGGGAAGTTTTTTAAAGCTCTTGC # 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: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.20] Score: 0/0.37 # Array degeneracy analysis prediction: R [13-1] 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 [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 202885-200943 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000003.1 Clostridioides difficile strain LC4-009-7 NODE_3_length_220721_cov_42.1028, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 202884 29 100.0 37 ............................. AAGTATTTTATTGGCTTATTTCAATCTTTAGAGGACT 202818 29 100.0 37 ............................. GTTACCACCAATAAGTCTAATATCAGTAGCTCCACCA 202752 29 100.0 37 ............................. TTTTTTACACCTCCAAACACAGCTCCTATCAGCTCAG 202686 29 100.0 39 ............................. GAACTTTTAAATATAAATTTTTATATTCTCCAACACTTC 202618 29 100.0 37 ............................. GGTACTGCCTATGACAACAAAGTATATACAGTTAAAG 202552 29 100.0 37 ............................. CCAACTAGGTGAAAGAAGCTTACCCAAAAGTATCACC 202486 29 100.0 38 ............................. TAATTAATGGTGTTATTAAGTCAAATTTTTGATTTTGC 202419 29 100.0 36 ............................. AAACTCAAAACTTTTTTATTATAGGTATTGATTTTT 202354 29 100.0 37 ............................. TAAATATTCATTTCAAGCTCTTTCATAAGCTCATATT 202288 29 100.0 38 ............................. GTAAGTCACTCTTTGCACGAGAGTGGCTTTTTGCTTTT 202221 29 100.0 36 ............................. TTAGACGAGATTGTTTTTATAGATACAGGACTAGAA 202156 29 100.0 36 ............................. GTTTTGAACGGGTATGACTAGTTTAGTTTCGTCAAG 202091 29 100.0 37 ............................. AAATAACAATTATTAGGAATTTGAGAAGTATTATGTG 202025 29 100.0 36 ............................. AATCACGAAAGTATTAACTACTTCTCGAACAGGCAA 201960 29 100.0 37 ............................. TTACTAACAGGAACATCAAAAGGAGGTTTAAAATCCG 201894 29 100.0 38 ............................. TCCCACACGTATAAATCAATTTGGTTTTCTGCTGTCGT 201827 29 100.0 37 ............................. TGCAAAAAAATCGGATAACCTAGTTCCTCTACAACTT 201761 29 100.0 37 ............................. ACGAGTCTAATATATTTTCGCTTCTTTTATTATTCTG 201695 29 100.0 37 ............................. TTTTTAAAGAATAGGTCACTAAAAAATTTTAATTTTG 201629 29 100.0 37 ............................. TGTGGATTTAAAGATGGAATAGTAACAAAGTATATTA 201563 29 100.0 37 ............................. GCAATATCTCCTCTTGTAATCGCTGAATAAAGATTTC 201497 29 100.0 37 ............................. CTATAACTTTTTCGCCAAAAACGTCTTTTATATCATT 201431 29 100.0 37 ............................. TCCAAAAGAACCTCTTTTTCTGTTTCATCAACTGTGT 201365 29 100.0 36 ............................. TTCTTTGAAAAGCATACTTTCTTTATTCTATCTTTA 201300 29 100.0 37 ............................. ATCGTAAATTTTTGTATAGGAGTCATACTTATAAGAG 201234 29 100.0 37 ............................. CAAAATGATTTGAAAATAACAAATATGTCTTTATTAA 201168 29 96.6 36 ............T................ TATAAATAAATAAACAGAAACAAAAATCAAATCTTT 201103 29 100.0 36 ............................. ATCATAAGAACCAGGGATATAGGGAAGGTCATAAGC 201038 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 200971 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ======================================= ================== 30 29 99.3 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACCAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCCTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTAATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGCATAAATATAATATTCCATCCAAAAGTTAAGAGGGTATATCTTTTTTTATGATGGGAATGG # 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: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [83.3-70.0]%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 13751-12935 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000035.1 Clostridioides difficile strain LC4-009-7 NODE_35_length_37168_cov_55.2119, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 13750 29 86.2 37 .AG..........A.T............. TGACTTTCATATGCTCTTTTATCAGCTTCTGACATAA 13684 29 100.0 37 ............................. ACTGGTAAAACTCTTAATGTATATGTTATTTGTAAAG 13618 29 93.1 36 A..............T............. CAGCTTTTTCTTTTAAGCTACATAACTGATTATACT 13553 29 96.6 36 A............................ TTCATAACTTGATTTGATTCATAACTTGTAGCCATT 13488 29 89.7 38 .........C.....T............T TGTCTTATTTTATTATTAAAGTTTTCTTGTTCATTTGT 13421 29 93.1 37 ...............T.....G....... GAATTAGTAGAGTACAAAAATTTAAAGTCAGAATTTA 13355 29 93.1 37 ..A.........................T TCAAATATAAAAGACTTTACATCTTTGCCATCGATTG 13289 29 93.1 36 .............A.T............. AAGGAACTTTTAAGAAGAATGTTACTTGCAGGAGAA 13224 29 96.6 37 A............................ TCCACATCTGCATCTTTACTTATGTTATTTGTATTGT 13158 29 100.0 37 ............................. TCATTTATCATGTTCAATCTAGCATTCGTACTAGTCA 13092 29 100.0 36 ............................. AATGGAGCTATAGTAGACAGCATTGATACAAATATT 13027 29 96.6 36 A............................ TTTGCAATAGCTTGTTTCATAAGATATACGCATTGA 12962 28 86.2 0 ...............T....-..T....A | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 94.2 37 GTTTTATATTAACTAAGTGGTATGTAAAG # Left flank : TAAGAAGTTAGATATACAAGATAATGAAAAGTTAGTAGTACTAGAGAGTAAAAGAGGTTGGAGTGGAAGTGTCAATAAGTATTCACAGAGTGTAATAGATAAAATAAGACATTGGATAGGTGAAAACAATAAGCCTGCTAAGATACAAGGTGAGAAGAAGAATTTTCATGTGGTTTATAAGATTGAGTAAATTTATAAGATTGTATTAAATAATTTATTTTAGTTTATTTTGGGGGGATTAATACAATGATTGAAGATTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAGTATTTTGTGAAGTTTGCTAATGCATTATATGAACTAAAACAGAATAGTGAAGAAAAATTTCAAGAATATGCAGAGATATTAAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAAATAATATAGATAAAGCACTTGAATATTATGATGTTTCAAGTGCTTTGTTTGTTAAAAAATGATATAATATAGGTAA # Right flank : TTAAAAATAATGAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATAATAATGTAAAAATTTTACTGATATAGTATAATAATCTTATAAAATTATGTAGGGGGTAATATTATGGGATTATTTGGGGGTAAAGAACCATGCAGCATATGTGGAGGAAAGGGTAAAAATAAAGTTTTAGAAAATGAATATTTATGTAATAATTGTTTTATTAATTTCACAATATTTTCTAGAGAAAGATTAAAAGCAACTAGTGCAATGCAAGTATTAGCTGACCATGAAGGGATAAGAAAATTTATAAATTTTTCTAAAACAAATAGAGAACTATTAGCAAAATTTGTTGAGACAAATAGAATTAATAAATTTGTATCCATTGATGAAGATAATAACTTTATTAAAATATCAGATATTCGCAAAGGTGGAGATGTAATAGAGAATGTATATGCAATTGATGAAATTATGCAATTTGAACTTTTAGAAGATGGAGAG # 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: R [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: F [3-9] 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: R [0.41,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 2 15613-15324 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000035.1 Clostridioides difficile strain LC4-009-7 NODE_35_length_37168_cov_55.2119, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 15612 29 86.2 37 GAA..........A............... AATGAATTTTGAGAATCTACATAGGATTGAACTACTA 15546 29 100.0 37 ............................. ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 15480 29 93.1 36 G...........................G GGAACATAAGGTAAATCATAAGAAACTCCAACAAGA 15415 29 96.6 35 ............................G ATCACTTTTTCTCAAGCTCTTACAATGATGAAAAA 15351 28 86.2 0 ....................-..TC...A | ========== ====== ====== ====== ============================= ===================================== ================== 5 29 92.4 36 ATTTTATATTAACTATGTGGTATGTAAAT # Left flank : ATTTCAAGCAGTTAAACAAATTATAAGAAAGCTTGATATTAAAGAAGATGAAATGAAAACAGTACTAGAAACCAACGGTTCTTGGACTGGTACTGTAACCAAATATTCTAATAAGGTTACAGAAAAAGTAAAAGAGTGGTTGAAAGAAAATAATAATCCCATTTCTGTTAAAGGAGACAAGAAAAACTATTATATATTGTATAAAAATAATTAGATTTTAGTTTTGAGTTTGAGGGGGATTAATAAAATGCGTGAAAGTTTACTTAATGAATATAATTTAAAAACTGATGAAGATGTAGAATACTTTGTAAAGTTTGCTACATTATTACATAAATTAAAACAGGACAATGAAGAAAAATTTCAAGAGTATGCAGAGATATTGAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAATAAATAGATAAAGCACTTGGATATTATGATGTTTCAGGTGCTTTGTTTGTAAAAAAATGGTATAATGGAAATAGA # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTGTTTTGCTCAAATTGGTCGATTGGGTAAAATAATTAGAAAAAATTGGGATAAGTTATTGACTTTTGAGTTCCAAAACTATATAATTTAATTATGGAACTCAAAAGTGAGGTGATAACATGAGTCCTAAAAAAATAGGAAGACCTGTTGTAGGAAGCCCTAAAACTAATGATATTAAGGTTAGAGTAGATGATGAAACTAATGAAAAATTAGATGAATACTGTAAAAAAAATAACCTTACAAAAGCAGAGGCTATAAGACAGGGAATCCATTTACTTTTAGAAAAATAACAAAAATAGAGTGTTCGCCCGACCAAGTTTGAACACTCTATTTAAACCATAAGAAGTAATCTTCTATATGAAATATTTTATCATATAGAGAAACTTCTTTCAAATTAAATTTAGGAGGAGTATGTATGATGAATGATTTACAAATATTTAAAAGTGAAGATTTTGGAGA # Questionable array : NO Score: 3.69 # Score Detail : 1:0, 2:3, 3:0, 4:0.62, 5:-1.5, 6:0.25, 7:0.01, 8:0.8, 9:0.51, # 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:81.48%AT] # Reference repeat match prediction: R [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: NA [3-3] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 3 17860-17236 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000035.1 Clostridioides difficile strain LC4-009-7 NODE_35_length_37168_cov_55.2119, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 17859 29 89.7 37 .AA..........A............... AATGAATTTTGAGAATCTACATAGGATTGAACTACTA 17793 29 96.6 37 A............................ ACTAAATTAGAGGTCGAGAAGGCTATTGAATCAAAAG 17727 29 100.0 38 ............................. GTATACTCAATAAAAAATTTATCACCATACTGTTACAC 17660 29 100.0 37 ............................. GAAGCATTATTTATTTTTTCTTCTATTATATCTATTT 17594 29 100.0 37 ............................. TAGGGAATTAGGAAATGGCTATTCTCCCCCTATATCC 17528 29 89.7 38 ......G.........A...A........ ATTTGAACATTTGTTACAGCATTAGAGATATTAATTGC 17461 29 89.7 36 ......G.........A...A........ CCAACTGAATAAACAATAATTTTATCAATTTCTTTA 17396 29 89.7 37 ......G.........A...A........ CATCATAGTCACGTATATTTTCTTTAAAAGTCAAAGT 17330 29 89.7 37 ......G.........A...A........ TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 17264 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 10 29 94.5 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : TGAGATTATTAAAAAGATAAAATTAGAAGAAAATGAAGTAAAAGGAGTTTGGGAAACAAATGGCTCTTGGACTGGGACTGTAAATAAGTATACAGAAAGTGTAATAGATAAGGTTAGAACTTGGATAGAGGAGAATAATAGACCAGCTAAGATTGAAGGTGAAAAGAAGAATTTTCATGTAGTGTATAAGATTGAGTAAATTTGATTGTATTAAATAGTTTAGTTTATTTTTGGGGGGATTAATACAATGTATGAGAATTTACTTAAGGAGTACAATTTAAAAACTGATGAAGATGCAGAATACTTTGTAAAGTTTGCTACATTATTACATAAATTAAAACAGGACAATGAAGAAAAATTTCAAGAGTATGCAGAGATATTGAGAGGTATTCTTAGAGAACAAGAAGAGAGAAAAAATAAGTAAATAAATAGATAAAGCACTTGGATATTATGATGTTTCAGGTGCTTTGTTTGTAAAAAAATGGTATAATGGAAATAGA # Right flank : AAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAGACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAAAAAGAAGCACTTACTTAAATAGTAGGTGCTTTTGTTATTCTTTGCTAGATAAAGTAACAAGTTCATTAGGTGTACATTCAAGAACAAGACAAAGCTTTTCGAATAAATCTAATTTTATAGAACTTGTTTCATTGTTAGCTAATTTCATCATGTTAGGATAAGCTATACCTACTTCTTTAGCTAACCAATATCTAGTTCGACCTTTGGATTCAAGTAATTTATCAATGTTAAAATACATTTTTTCACCTCTTAAGTATATTATACAACAATTATATAATGTTTGCAATATATAATATGCAAACAATATAATTATATAATGTTGACATTATATAATGTGTACGATATAATATACTTAAGGAATAAAAAATAAGAGCCACTCGCCCCTACCAAGTTTGAGTAACTCTTATTGACATATACTACATAT # 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: 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: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [73.3-71.7]%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 4 20374-19553 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000035.1 Clostridioides difficile strain LC4-009-7 NODE_35_length_37168_cov_55.2119, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 20373 29 100.0 38 ............................. TAAACGAAATTAAAAATCTAATTGATAGTATTACAAGA 20306 29 100.0 36 ............................. CAAGTGGGCGAAAGATGATTATATACCAGAATCACT 20241 29 100.0 37 ............................. AAAACTGAATAATGCAGGTGAAAAGTTCTTAACAGAG 20175 29 100.0 37 ............................. GGGACAGACTCAACCCTACTATTTACAAGCTTTATAA 20109 29 100.0 37 ............................. AATATATTCTATTATTAAAAGTAATTGTATCGGGTAC 20043 29 100.0 37 ............................. TTTATCAAATACACATACATTTTAATATTTTCTTCAT 19977 29 100.0 38 ............................. TCTAAAAGGTCACATATATTTATTAAATCTGTTGCCTT 19910 29 100.0 38 ............................. CAGCTTTACATATCTATCTATGATTTTTGAATCTCCAT 19843 29 100.0 36 ............................. TCTAATTTAGTTGTTAAAATAAATTCCTTACCAATT 19778 29 100.0 37 ............................. TGAGCTGTTAGATAATATCCTAGCATTTTTATTTTTC 19712 29 100.0 36 ............................. TATGTACCTAGAAATTTAGAAAGTTTTGGAGAAATA 19647 29 100.0 37 ............................. TTCGCAACTTATGATGGTGAAATGATTACATTAACAG 19581 29 89.7 0 ......T.........G...T........ | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 99.2 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : ATGATATAATAATTGTAGCAAGGAAAATAAAATTGAAAAGCTAAGGGTGATTTTCTCATATAAACGCCAAATTCCAATATAGGAAGGAGGTGAATTTATATGTTAATTAACTTTTTATTGAGTATAGTAGCTGGAATTGTTTCAGCTTACATTTACGAGAAAATAAAAAATCACCCAAACGCCAATAAGGGTGATTTAAAGAAATAACTTTTAAATTCTAATCAATTAGAGAAATTCACCTTTTACAAAGTAAATTTTATCTCCTTGCTATTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATTTTTGTGATAAAATATGGCCTAACACTTGAAATATAATGTATTGAGGACGTATGATAAGTATTATCATTTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGGTGTGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : AAAGCAAAAGATAGGAATGATAATTTTAAAACTCCAGACTTTTATATTAACAATGTGGAGAAAAACTAAATAGAAGAAAGAAGCACTTATTTTTGGTAGGTGCTTTTGTTTTGCTCAAAATTGGTCGGTTGAGTAAAATAATTAGAAAAAATTAGTAAAAACTCTTGAAAAGTGTCGCGATACAATGTATAATTATATTATCGCGATACAGAAAAGAGGTGAAAATTATTACTGATAGCAGTAGAGCAGATTACTTCAAGCAGAGACGACAGAATAAGAAAACTTTTAGTGTTCTACTAGATAGAGAGAAAGTAGAAAAAATTGAAGAACATTTAAAAAAGCAGAACAAGACTAAAACTATTTGGCTTGAAGAAAAGATTAATGAAGAGTTAGAAAAAGAGGAATAAAAAATAAGAGACGTTCTCCCCGACCAAAGATTGAACATCCCTTATTGACGTATATTATATACACTAACTATAGTATACGTCATTCCTTAAAAA # 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: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 1 15044-15200 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000050.1 Clostridioides difficile strain LC4-009-7 NODE_50_length_15201_cov_44.3133, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =================================== ================== 15044 29 100.0 35 ............................. AAACCTGGATTAGCTTTTATCCAACATTCTTCTCT 15108 29 100.0 35 ............................. GCTACTAGACCAGCTACCACTAACAGTACGAATGA 15172 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= =================================== ================== 3 29 100.0 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGTTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCTAGCTAGAAGAAGAACTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTATGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : A # 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 : 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [68.3-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.77,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 46387-45900 **** Predicted by CRISPRDetect 2.4 *** >NZ_SERA01000005.1 Clostridioides difficile strain LC4-009-7 NODE_5_length_207133_cov_49.8877, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 46386 29 100.0 37 ............................. TTTTTCATTTTTATTTTTTTAGTTGCATTTTCAACTG 46320 29 100.0 37 ............................. TATTTTTTAGCTTTTTCTCTATATGTACCAATATCAC 46254 29 100.0 36 ............................. TAGAAATACAATTCGGAACTTGTTTCTGTTGAATTT 46189 29 100.0 37 ............................. AGGTTTAAAAACCTCTGTTCTTCCACCATAATACCCA 46123 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGACACAGTGTCAG 46057 29 86.2 36 .........C............GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 45992 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 45928 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ===================================== ================== 8 29 92.2 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATACACTTACCTACAAACATTATAAAATCAATACAAAAATGAGGTGAAACAAAATTTATGATAAAGAAATTAAACAGTAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTACAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGATTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACAT # 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: 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 [18-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-75.0]%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], //