Array 1 81194-80513 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000019.1 Clostridioides difficile strain HU45 NODE_19_length_84837_cov_27.8766, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 81193 29 100.0 37 ............................. CTGACTCGGGAGCATATAATAAGTAATATCAAGAATA 81127 29 100.0 37 ............................. TTCGTAAAATAACAATTGTCAGGAATATGAGAAGTTT 81061 29 100.0 34 ............................. TTGGACTCAAAATATAAGTTAAAAAAATTTTTAA 80998 29 100.0 36 ............................. ATTTTTGACGCTATGAAGAAATTTACTACAAAATTT 80933 29 100.0 36 ............................. ACTTTTTTCATCCTCCCAAACCTCTTGTTCGCTGTC 80868 29 100.0 38 ............................. AAGAAAATAAGTTTAAAAAAAGGTTTCATTATTATATC 80801 29 100.0 36 ............................. CCAATTATGTACAGTTTAGTTACTGTGTTAAGTCTT 80736 29 100.0 37 ............................. TCCTTTTATAAATATCTTCTGACATGTGTATATGCTT 80670 29 96.6 36 ............................T CGGCTACAACGGTATAAATTAAATTTAGCAGGGTAC 80605 29 93.1 36 A...........................T TGCTGTGATTTCAATAATAAAACAATTAATAATTGT 80540 28 86.2 0 ................G....T.C-.... | ========== ====== ====== ====== ============================= ====================================== ================== 11 29 97.8 36 GTTTTAGATTAACTATATGGAATGTAAAA # Left flank : AATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAGAAAATAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCGATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TTAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATGTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTGTTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAA # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [7-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-71.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.41 Confidence: MEDIUM] # Array family : NA // Array 1 218987-220649 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000001.1 Clostridioides difficile strain HU45 NODE_1_length_387601_cov_30.9901, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 218987 29 100.0 37 ............................. AATTTTTTCGGATATTTAATAATTTATTTTAAATTTA 219053 29 100.0 36 ............................. CTCAACAGTATCTACAAGAACTTCTATATCTTCTAA 219118 29 100.0 36 ............................. TAATTTAGGGTAACTTTTATATTATTTTCTTCTATC 219183 29 100.0 37 ............................. TTGGTTGATATAGATATTAGTCCTATTATTTCTGCTT 219249 29 100.0 37 ............................. AAATTAGATAATTTATAAGTCAATAAAATAAGTCCAA 219315 29 100.0 37 ............................. AAATTTGTAATATTATATAATCATCCTAAAACAAAAG 219381 29 100.0 36 ............................. TCGAATGCTATAATTTTAATATATAAAATAAATGGA 219446 29 100.0 36 ............................. ATGGATTTTAGTCGTTTTTAAATTTTTCTCGTAATA 219511 29 100.0 38 ............................. ACCATTCATTTATATTTTTATCTGTATCTCTTAGCCAT 219578 29 100.0 34 ............................. TAAGTTTTCTTAAAAAAGTACTTGCTTTAAATAT 219641 29 100.0 37 ............................. TTTATTTTCTCTTTATTAGTCATTAGTTTTTGCCTTC 219707 29 100.0 37 ............................. ATGAAGAATTTGCGAAACTAATAAGAAAAGATATTGA 219773 29 100.0 36 ............................. CTTTCTTTATCAAAGTAAGCTAAATTTAGTTCCTCC 219838 29 100.0 36 ............................. CGTCATTACTTTTTATTGCTTCCATTAAATTTGTTC 219903 29 100.0 36 ............................. ATCGCAAGATAGGCTAAATCTATCAAGGAGAGTTGA 219968 29 100.0 37 ............................. GACTCTGCCATCCCTGTAACAAACAGTCTTACCGCAA 220034 29 100.0 37 ............................. AAATATTTTACGATTAGTTGATGCTATAATTCTATTA 220100 29 100.0 36 ............................. TCTTTTGATTTAGCGTTGTTTGTCCGGAATTTTAAA 220165 29 100.0 37 ............................. TCGGGCTAGAATGTATTTTAAACCCTAGTTCATTGAA 220231 29 100.0 36 ............................. TTTCTAATATCGCTATTTAAACTCAATGCTTCATTT 220296 29 100.0 37 ............................. TCAGAACAAATTAAATATGTTTCGTTTTCCATGTAAG 220362 29 100.0 38 ............................. AGAACTTTTTTATATTAGAAGTACTTGACATGATTGCC 220429 29 100.0 34 ............................. CTTGATAATATTTCAGCATATGATACTGAAGATG 220492 29 89.7 36 ......................GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 220557 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 220621 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 26 29 97.8 36 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAATTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : TAAAATAAACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGATATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTTATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATATGATTACA # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [0-17] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-83.3]%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 3612-4761 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000021.1 Clostridioides difficile strain HU45 NODE_21_length_68513_cov_24.7986, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 3612 29 100.0 37 ............................. AGCAGTTAAAGTTGCAAACATCAACTTAACAGGAAAA 3678 29 100.0 37 ............................. TCCAAAATTTTAACTTTTTCTTTTTCTAAATCTTTAT 3744 29 100.0 38 ............................. TTTAAATTATAAAAAGTATACAAACGAAAATTATCAAC 3811 29 100.0 36 ............................. TAACCTCTCCTGTACGTTTATCTATGTACTCATTAG 3876 29 100.0 36 ............................. CTCTTTAGCGCTTCTTCAAGTTGTATTTGTGTATAA 3941 29 100.0 36 ............................. TTCATATTCCAAGCGTTTTGCTTACACTTAATAGAA 4006 29 100.0 38 ............................. AAAATTAAATTTCATGCTCTTAGACATACATATGCAAC 4073 29 100.0 36 ............................. TAGATTGCTTTCAAATTACCTCTTGTATAGCGTCTT 4138 29 100.0 37 ............................. CTTTTTTTATTAGTGAAAGGGGGTGGTTAAAATTAAA 4204 29 100.0 37 ............................. TTGCTCCGCTATGCCTTGCGCTCTCTAATATCGCTTA 4270 29 100.0 40 ............................. GGTTTTAAAGACCCAGCAACGATAAAACAATATGTTGCAA 4339 29 100.0 35 ............................. TGAACTTTAATCGGTTTTATACAACAATATAACGC 4403 29 100.0 38 ............................. AATGAAGGTATAATAAAATTAACAGAAGAAACAAGAGA 4470 29 100.0 37 ............................. TCACACATGAGCAATATCGAAACAGGCAAATCTACAG 4536 29 100.0 36 ............................. TTCGTAAAATAACAATTATCTGGAATATGAGAAGTT 4601 29 100.0 37 ............................. CACTCTTAAGTTGTGACCTATCTGATATATGATTAAA 4667 29 100.0 37 ............................. TCAATATCTATATTAAGTTTATTTTTAAAAACATCTT 4733 29 96.6 0 ...............C............. | ========== ====== ====== ====== ============================= ======================================== ================== 18 29 99.8 37 GTTTTATATTAACTATGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTAATCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTATCCTTTAAAATATAATTATTTTTTAGCATTTGTAGTAAATAATTACCAGATAACATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 97% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-0.50,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 3074-3897 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000033.1 Clostridioides difficile strain HU45 NODE_33_length_49005_cov_25.5388, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 3074 29 100.0 38 ............................. GTTTTTTAAACCGGAGTTGTTTTGATTATTTAAATCCA 3141 29 100.0 38 ............................. AATTTTTTCACTTAATCTTCCTCCATTTTTTCTTTAAG 3208 29 100.0 36 ............................. ATTATCAAAATTTCTTTTTTCTTCTTAACACAAAAA 3273 29 100.0 38 ............................. GTTATAAGAGGTTTAAATACGATAAGAGTTAAAGAAGG 3340 29 100.0 37 ............................. GGTGGTAGTGGAGAAGCTTCATCAGAAATTACAGCAG 3406 29 100.0 37 ............................. GCTAATATGTTAAGTAAAAAATTATCCATACATATTC 3472 29 100.0 36 ............................. GTACCAGTTCCACCAACACCGGAGCAGGAACAACCA 3537 29 100.0 37 ............................. CTTATAACACTTCCTCTCTTAATTCTGCATTAAGCAG 3603 29 100.0 37 ............................. ATGTAATAGAATGCAAAATGACACAGCCATATAATGC 3669 29 100.0 38 ............................. TATGTAAAAAATAAAATAAATAAAAGTAACACTTTATA 3736 29 96.6 37 .......................A..... AGCAATTCTGATATTTTTATTCTAATCATTTGAAATC 3802 29 100.0 38 ............................. CCATCTTTTGTTGCTTTACATAAATTTATATTACTTAC 3869 29 82.8 0 ........C........CA....A...T. | ========== ====== ====== ====== ============================= ====================================== ================== 13 29 98.4 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATCATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGTATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGG # Right flank : TTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTATCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATATTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGATGGGAATGG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [70.0-83.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.91,0.27 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 4456-4098 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000034.1 Clostridioides difficile strain HU45 NODE_34_length_48954_cov_28.544, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 4455 29 100.0 37 ............................. ATTTTTTTTATATATAAACTTCTAAACTTTTACAAAA 4389 29 100.0 37 ............................. ACACTTCCAACAAGCATTGTAGGGTTGAAGTCTACAG 4323 29 100.0 37 ............................. TAAATCGTATTTATAATTATATCTACACTTAGTAAAT 4257 29 100.0 37 ............................. CCAATAGACCCTCCAATAACTCCAGATATTCCTTCTG 4191 29 100.0 36 ............................. AATGAACTATCTAAACCAAGGTCATAATTTAATTGA 4126 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ===================================== ================== 6 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GGAGTTCATGTATCAAAAAATTATCCTCCCGACGCTAAGAAGGGAGGTGAATATACATGGATAATTTTTTACAAGGCATACTAGCAAGTCTATCTGCTAGCTTAATAGTTTATATAGCTAGCAAACTATTTAGAAAGCGTAAAAAACCACTCAAAGCGGCAACTAAGAGTGGTTGGGAATTTGATTTAAAAATCAGATTCCATAAAACTAAGTAATTTCTAAATTATGAACTCCACTCTACAGCAAAATAGATTGTAGTTCTTCTTGCTTTTATTATATCACAAATTGGTACAGATATTCAAAAATAATATTTTTATGATATAATAAAGTCATAGAAATTTTGCAGTGTTCGATTTTTTGAAGAAATTAAGGCTTAACAGTTGAAATATAAGGCATTGAGGACTTGTGATAAGTGTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGATTTGTATATGTGTAGGCATTGGAAATACTCAATTTATTTTGGG # Right flank : TGTATCCAAAAAATTACAATAATCATACGAATTGCTAATATAAGCAGTCAATATATGTGTACATTTATCCATTTTATCTCTAAACATATAAATTATTATCCCCCTAAAAAACTTTCATAAAAACAAAAAGAACAATATCTCTTTGGCAACTGGCTAACATAACTCATAAGATATTTATATAAGTCTTAGTCCCTATAGCTTTGCGTCACTAGATTTCTCTAGTTTTGCCGATTTAGTTTTATTCTATAACTAAATAATACAATAGAATTAGTTATTATTCAACAAGATTGTTTGAAAATTGAATAAATTTATAGGTATGAACGTAATTTCACACTTAAAAACAGACTAAATACGTAGAATATATAGAAAAATTTACCTGTAGTTTTTGTGATAAAAAGCTCCTATTATTAATTTAAGCTAGATAAGTTTGAGGAAGTGACATAAATTGAAAGAAGGAATATATTATGTTGAATAAAAAATTACCAGATGCAGAATTAAAA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:82.76%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 90% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.5 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 5359-5198 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000038.1 Clostridioides difficile strain HU45 NODE_38_length_34610_cov_21.5832, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 5358 29 100.0 37 ............................. TTACTAAACATCTTATAACTTCTCTGAGAGCCTCTAG 5292 29 100.0 37 ............................. AGAGGCAACTAATTGCTTATGAGTCTGCTAGTCTTAA 5226 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ===================================== ================== 3 29 98.9 38 GTTTTATATCAACTATGTGGTATGTAAAG # Left flank : TATGCTTTTAATAATATTCATAATACAATCACCTATAATTAAATTTTTATTAATTATATTCTAGCATCAAATATTGAATAAGTCATCTTCTTTAAAATACAATAAATAGTATTTTGCTCAAATTTTCAAATGCTTCTCTGTCCATCTCTTCTAAAAACTGAGAGTAGCTATTCATAGTTATTTTTATATCTGCATGACCTAATCTTTCTGAAATAGTTTTTATATTAGTTCCAGGAAGAAACATTAAAGTTGCATTATTATAGAATTTAAACATAATTAAATGTAAAAATTAATTGAAAATATTAATTATATGCTATGATATAATAAAAATATAGAAATTTTGCAGTGAGCGATATTTGTGATAAATTGAGGTTTAGCAGTTGAAATATAAGGTATTGAGAATATATGATAAGTATTATCAATTGCAATATTGCGCGTTCACTGCAATTTTAAGAGCATTGTATATGTGTAAACATTGGAGATGCTAAGTTTATTTTGGA # Right flank : TTTTTATTACATTAAAAACAATTCTCCCAAAAACACAAATAATTGTCACAACACACAGTCCTCATATTTTACAAATTGATTCTAAAGAAGAAATGATTGTGTTAGATATGGCTGAAAGTGATAATGTATATAAAAAAGAGTTAAAACTTGGAGAATACGGGGTATTAGGCTGGACCAATGAAGGTTTATATTTACATTAAGAGCACTCTTTTTATAGGAGTGCTTATTTTTTTGAAATTCATTAGCATATAAACTATCAAGAACATTACTCAATATACCTTATTTACTTCACCAATGATTATCTTACATATATTAACAATAAAAAAAGACTCTAAAAAGAGTCTTTCCCGAAAAATCTATATATTATAATATAGTTATATTTTCTGCTTGAGGACCTCTAGCACCTTTAACTATATCAAAGCTTACTTGTTGACCTTCTTCTAATGATTTAAATCCTGAAGTTTGTATAGCTGAGAAATGAGCAAACACATCATCTCTAC # Questionable array : NO Score: 5.31 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATCAACTATGTGGTATGTAAAG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:75.00%AT] # Reference repeat match prediction: R [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 93% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [0.00,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [75.0-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 12225-11932 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000041.1 Clostridioides difficile strain HU45 NODE_41_length_26379_cov_57.6183, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ==================================== ================== 12224 30 100.0 36 .............................. CAGATTTTAAACCTCCTTTTGATGTTCCTGTTTCTG 12158 30 100.0 36 .............................. TCAAACAATGCCATGGAGGGTGGATACTATCAAGCT 12092 30 100.0 36 .............................. AGTTGTGGAATGATTTTAGTAATACAAATTCGTTTG 12026 30 96.7 35 G............................. ATGCAACTTATAGTTATGGAGAAGAAGCTATATTT 11961 30 100.0 0 .............................. | ========== ====== ====== ====== ============================== ==================================== ================== 5 30 99.3 36 AATTTACATTCCATATAGTTAATCTAAAAC # Left flank : GGAATGACGTATACTATAGTTAGTGTATATAATATACGTCAATAAGGGATGTTCAATCTTTGGTCGGGGAGAACGTCTCTTATTTTTTATTCCTCTTTTTCTAACTCTTCATTAATCTTTTCTTCAAGCCAAATAGTTTTAGTCTTGTTCTGCTTTTTTAAATGTTCTTCAATTTTTTCTACTTTCTCTCTATCTAGTAGAACACTAAAAGTTTTCTTATTCTGTCGTCTCTGCTTGAAGTAATCTGCTCTACTGCTATCAGTAATAATTTTCACCTCTTTTCTGTATCGCGATAATATAATTATACATTGTATCGCGACACTTTTCAAGAGTTTTTACTAGTTTTTACTAATTTTTTCTAATTATTTCACTCAACCGACCAATTTGAGCAAAACAAAAGCACCTACATATTTGTAAGTGCTTTCTTTGTTTATTTAGTTTTTCTCCACATAGTTAATCTATAACACAATTATTAATTGTTTTATTAGTGAAATCACAGC # Right flank : CCCAAAATAAACTTAGCATTTCCAATACCTACACATACGCATCTCTCTCAAATTTGCAGTGAACCATGAGTAGTGCAATTGATAACATTTATCACACACCCTCAATGCCTTGTATTTCAAGTGTTAGACCATATTTTGTAACAAATATCGCTCACTGCAAAACTATTTATATTTTTATTATATCATAAAAATATTATTTTTGAATATCTGTACCAATTTGTGGTATAATAAAAGCAAGGAAATAATTTACTTTATACAAGAGTAGCTATTTCCATCAAAATTGATTTAAAGAATTATTTTTTTAAATCACCCTTATTGGCGTCTGGGTGATTTTTTATTTTGTCATAAATATAAGCTGATATAACACCAGCTAGTATGCTTAATAAAAAACCTATCATATAATTTCACCTCCTTCCTTATTTGGAATTTGGCGTTTAATATGAAAATAATCACCCTTCGCACTTTCGATTATTATCCTTGCTACAATTATTATAACATAT # 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 : AATTTACATTCCATATAGTTAATCTAAAAC # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:80.00%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: 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: R [63.3-75.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,0.68 Confidence: HIGH] # Array family : NA // Array 2 15995-16557 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000041.1 Clostridioides difficile strain HU45 NODE_41_length_26379_cov_57.6183, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ====================================== ================== 15995 30 100.0 36 .............................. AGTATTAGAAATACTTCGCTTGTTTGGAAATCATAA 16061 30 100.0 36 .............................. TCATCTAAAAGTTTAGCCCAAGTTTGAACTGCTATC 16127 30 100.0 36 .............................. CTATCTCTTCTTTTACCTTCTATAAAATTTAATTGT 16193 30 100.0 36 .............................. CTATTAGTTACTTTATAGCTTACATAGTAAATGCCT 16259 30 100.0 37 .............................. ACTGTTTCTCTGTTCGAAGTATGTGCTACATCTCCAA 16326 30 100.0 36 .............................. GAAAGCCACGCTTGCGCATTAGACTGTTTGAAGTTG 16392 30 100.0 38 .............................. TGAATAAATTCTTTTGTATTTTTATCAAAATACGGCTC 16460 30 100.0 36 .............................. ATGTGTTGAAGCAGAAGCTTTTGAGAATGGTTTAGA 16526 30 86.7 0 ................G.....AAA..... | AA [16548] ========== ====== ====== ====== ============================== ====================================== ================== 9 30 98.5 36 GTTGAAGAATAACATGAGATGTTTTTAAAT # Left flank : TATATTGTATAAAAATAATTAGATTTTAGTTTAGTTTTGAGGGGGATTAATACAATGTATGAGAATTTACTTGATATGGATAGAATAGAACTTATTAGAGAACTTGGAAGTATCTTTGAAAAAATGAAAAATGAAAATCCAGATGAATTTTATAGATTTGTAAGTTTAGTGAAAGAAGAATGTAGGAAAAAAAGAGAAAGAGAATAAATAATATAGATAAAGCACTTATAAGTACATAAAAGTGCTTTATCTTCCAAAATATGCTATAATTGTAGTATCAAATATATAGGGTGATTACGCATCCTAAGTGTGAGATTATCCCAAGCAATTGGAATTGATACTCACAAAGATGATTACTAAATAAAGTAATTATCACCGTCCCAATAAACATTGGGTAAAAACATCTGAAATTTAAAAACACTTGGGATAAATTTGATTAATGTTAGTATTTACAATGGTTATGTTGTTTTATTTTATTTAAGAATGTGCATTTTTAAGTG # Right flank : TATTTATATAAAACACTTACTTAAATAGTAGGTGTTTTTTAATTGAAAGGATGTGATTATAATGTAAAAATTTTGAAGATATAGTATAATATTCTTATAAAATATAATTTAGGGGGATATTATGAGAGAAGGAAAGAGAAGAAGAGGATGTCTATTTTGGTTTATTCTTATTATTTTATTTTCTGGAGTTGTTGGAGCAATAGCAGGGAACAGTACTAATAATGAAAGCGCTGAAAAACAGAAAGAGGATTTAACTAAATATATTGGTGAAGAAGGTAGTATAGGAGATTTAAAATTAACTGTTAATAGCATTTCAAAAGCTAGTGAAATATCAGTAGCATCTGGTTATTTAGCATACACTCCAGATAGTGGCAAATATGGTATTATAAATTTAACAATAAAAAATCAAACTAAGGAAAGCCAATCTTTTATGCTAAATTCATTCACATTAATAGGACCAGATGATTCAAAATATGTTCCATCTTTATTGATTGATGTAG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTGAAGAATAACATGAGATGTTTTTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:76.67%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [-0.40,-0.90] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [78.3-80.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [0.41,0 Confidence: MEDIUM] # Array family : NA // Array 1 60009-59384 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAUXL010000005.1 Clostridioides difficile strain HU45 NODE_5_length_184796_cov_27.4248, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================== ================== 60008 29 100.0 36 ............................. TTTTTAATTATGTTTATATTAATAAATCCAAAATAT 59943 29 100.0 37 ............................. TCAAATCGTTAGACTGGAAGTATAAGTTGTAGTGACC 59877 29 100.0 35 ............................. CCTATATTACTTAAATTATTACTTAAATACTGATA 59813 29 96.6 37 ............G................ TATAAAACTTCTTGCATCTCTGCATTAAAAAAAGACT 59747 29 100.0 38 ............................. ATAAGGAAGAAGAATAAAAAGGGGATGTTTTTATGGAA 59680 29 100.0 38 ............................. TTATTATTATAATGGTCATGTATATCAAGTTTAGTAGC 59613 29 100.0 37 ............................. TATTTCTTCCTTTTGCACATATACATCATCTAAATTG 59547 29 100.0 40 ............................. ATGACTAAAATCATAGAAAAAGCACTAGAACCAGCTAAGG 59478 29 93.1 37 .G.....................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 59412 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ======================================== ================== 10 29 95.9 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATCTAGGGTTTTATTTGACGTGCTCTTTTTTAGATAGTAAACTTTAAAATATAGATATTAATTATATGAATATAATAAAAAGAGTACTAATGAGTTACACTAGTACTTTATAACTATTTTTACATGTTTTAACTGTATAAAACAGCGGGTATAGTTCACACAGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACGTCTAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTATAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGAGCTTAACGCTTGAAATATAAGGTGTTGAGGGTATATGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCATATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : AAACATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTTTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTATATTAACTAAGTGGTATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: 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 [11-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [75.0-66.7]%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], //