Array 1 423-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000001.1 Clostridioides difficile strain JV16 056 JV16_contig_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 422 29 100.0 36 ............................. AACATAATTATAACATAGGAGTTCATTAAATGAAAA 357 29 100.0 37 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGA 291 29 100.0 37 ............................. TTAAAAATAAAGGGTTTAGAGAGTATATGTATAGAGT 225 29 100.0 36 ............................. ACAACAGGAACATCAACTGGTGGGTCTATTGGAGGG 160 29 100.0 37 ............................. AGCAAGATACTGCAAATATTTATATACACCAAACATT 94 29 100.0 38 ............................. ACAGTAGGAATAGGGTCTACTGGAGGGTCAACAGGTGG 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ====================================== ================== 7 29 99.0 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : TACAATTTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAATGTATAGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTTTAGTTGCCAGTTTAATAGTTTACTTAAATAGTAAATTATTTAAAAAAGTAAAAAGCCACTCTGGCAGGAGTGACTTTAGTTTTGAACTAAAAATCAAGTTCAAAAAGAATAAACATTAGTATTTGAACTTCACTCTACATCTAAATAGATTGTAGTTCTTCTTATTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAAATAGTTTTGCAGTGAGCGATATTTGTTACAAAGTAGGGCTTAACGCTTGAAATATAAGGTGTTGAGGGCATGTGATAAGCTTTATCATTTGCACTACTCATGGTTCACTGCAAATTTAAGAGAGTTGCACATGTGTAAGTATTGAAAATGCCCAGTTTATTTTGGG # Right flank : A # 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 : 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 60699-62038 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000003.1 Clostridioides difficile strain JV16 056 JV16_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================= ================== 60699 29 100.0 38 ............................. ACGTTAGATGTTGTAACCTGTTTAGGTTTAATTAGTAC 60766 29 100.0 36 ............................. TTTAAACGAAACACTTGAAATAGTTGACGTAGTAGC 60831 29 100.0 36 ............................. TTAATTTTTTTATTAAGTTGAAAATACTGAGTTAAA 60896 29 100.0 36 ............................. GATTTTTCTGCTTCGACTGGTGTTATTGAGACTTTT 60961 29 100.0 37 ............................. ATACACTTGAATAGTTCTGAAGAACTCAAAAACTATG 61027 29 100.0 37 ............................. TTTAACAATGCCTTTTCAATTTCGTTTATTTTTTCAA 61093 29 100.0 37 ............................. AATTAACGCATCTGCTATTGCTCCTTTTTCTATCCAC 61159 29 100.0 37 ............................. CTTTCTATATGTTCATTTTACTACATAATTAAATCGT 61225 29 100.0 36 ............................. AAAAATCACCCCTTTAAAAAAATTCGCGAGTACACT 61290 29 100.0 36 ............................. AAAGTATAAACAAGCAGTTCTTTCTTTAAATAATGA 61355 29 100.0 37 ............................. TGTTGAAAATAAAGACTTTACAGTAGTTACAACACTA 61421 29 100.0 30 ............................. CTTTCATTATTTTTTCTTCTAACTCTTTCA 61480 29 100.0 37 ............................. AATCGTGTTTACACACTTGAATATAGAAGTAAATTTT 61546 29 100.0 37 ............................. CGTGATTATAAAATTGAAAACGGAAAATTTGTATTAA 61612 29 100.0 37 ............................. TACTTAAAAAATTTTTTCGTCTGCATGTAAAAATAGA 61678 29 100.0 36 ............................. AGTGAATGTGACCAATTTTGTGACGAATTATCAGAG 61743 29 100.0 38 ............................. TGGTTAAATCTCCAACAGAACATTTATCTAAATTACAA 61810 29 100.0 39 ............................. TAGAAAATAACGTCAGTAGTATTAGCAGGTAAATCTAAA 61878 29 100.0 37 ............................. AACACTTTAAAAACTAATGTATTCAGTATAAGAGATT 61944 29 93.1 37 ...............T.A........... CTTGTTAATGCAAATAAACAACATAGCACTATTAATA 62010 29 96.6 0 ...............T............. | ========== ====== ====== ====== ============================= ======================================= ================== 21 29 99.5 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CTATTATTATATATAACTGACATTTAAGTGACATTTAAGAAAAATATAATGCCTACTTACATAAAATGGAATGTTATTTAAAGAGAACTTTGATTATATTTTCAGAAGCTTTTTTATCCATATCGTTTAAAACAAGAAAATATCTATTCATAGTTATTTTTATATTAGTATGTCCTATTCTTTCAGAGATGATTTTTATATTAGTTCCAGCTAGAAGAAGAATTATTAGAATAGATAATATAGTAAGTATTTACAAATATGTAGGTGTTCTTAAATTGATAAATTATTCCATTTTAATTTTATAGTTTGAATTTTATGATATAATAAAAATATATAAATTTTGCAGTGAGCGATATTTTTGATAAAGTAGGGTTTAACAGTTGCAATGTAAGGGATTGAGGGTGTGTGATAAATGTTATCAATTGCACCACTCATGGTTCACTGCAAATTTGAGAGAGTTGTATGTGTGTAAGTACTGAAAATACTTAGTTTATTTTGGG # Right flank : TTTGCAACAAGTATAGGTAAAATACCCCAATAATTTATACAGCATTTTCTCCTTTAAAATATAATTATTTTTTATCATTTGTAGTAAATAATTACCAGATAATATTGACTTTAGTTTTAATGATTAAAATATAAAAGTAGAATAATTATAAAAAGTATTGAAAAATTTATAAATATATATAATAAAACTTAATGACAAGATATTAGATATAAAAAATAATTACCTTATAAATAGATTGAAATTTATGAATATTCATACTATAATTTAAATATAAGGAGATGCCCTTTGAAAATAAAAATTAAAAAATATTTAATGCTACTACAATAGGAACTAGAACTACACTTAATAAATATACAGAAATTAGATTTGGCTCAATATAAAATACAAATATAGAATTTAGGTGTTTTTTATGAAAAAAATTTTATATGCTTTATATAGTTTCATTGTTATTATAGCTAATTTTAGATTAAAAGAAAAAAATTATAACTTTATTTTATTAG # 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 1-445 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000035.1 Clostridioides difficile strain JV16 056 JV16_contig_36, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 1 28 96.6 36 -............................ CGTACCAAACGAGAAAATGACTTCATACTCAACCCT 65 29 100.0 37 ............................. TGACCTAACCTAACAATGTATTGATTTCCTCCACCTA 131 29 100.0 36 ............................. AATTTATATTTAAAATTATACACTAGACTTCTAAAA 196 29 100.0 36 ............................. TACTCTCCGTATTCGTCATCAATTCTATCTTGAATA 261 29 96.6 37 ............................A TGATAATAAGACTGAAAATAGTGCGAGTATTTCATTA 327 29 93.1 29 ...................T...A..... GTTTTTTCTTATTAAATAAAGATTGAGTC 385 29 69.0 2 AC..........TA...CAT.T.C..... TG T [392] Deletion [418] 417 28 72.4 0 A....G.T..T.-....A.....T.G... | A [436] ========== ====== ====== ====== ============================= ===================================== ================== 8 29 91.0 31 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : | # Right flank : TAATATGGAAAAAGATGATTAATAAATTATTAATTAGGGTATAAAATGATATAAATAGAATAAATAAGGGGTGGATGAAATGCTTGTATATAATAAAAGTTTTTATCCTAATGACATATTTCCAAGATTAGATTTTTCAAAAATAAAAAAACAGTTAAAATTGATAGATAATGACCTGTCAGATTTTGGAAGCATATGTATAATAGAAAAAGAACATTATACAATAAGTGTAAACAGTATAGGTGAAATAAATGTGTATTATGATTTAGAGTACGAAAATAAGGTGTATAGAATAGTTTATGAGATTGAAAAGTTATTTAAATCTCAAGTTGGAAGGTTTAGCATATCTACATACAGAAATTGATAATTAAAAAAGTAGAAATTAAAAAACTTAATACTAAAGATATAGATAAATATATGAGGTAACAGCTAGAGAGAGTTGTTACCCTTTTTAAATACTAAGTATATATTATTCTTATTAATTTTTTGTAAATTCACTA # Questionable array : NO Score: 5.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.55, 5:0, 6:0.25, 7:-0.42, 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 : 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:85.71%AT] # Reference repeat match prediction: F [matched GTTTTATATTAACTAAGTGGTATGTAAAG with 89% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: F [0-20] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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 1 491-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000013.1 Clostridioides difficile strain JV16 056 JV16_contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 490 29 100.0 37 ............................. ATCAGCACGTGGTGGGTACTGTTCGTAATATTAGTTA 424 29 100.0 37 ............................. GTAGGAAAAAGTAGTTTTCCTGTATCGTCTTTATATG 358 29 100.0 36 ............................. TAGATTATTTTACTACTAAACTTAACGAGTACAATG 293 29 100.0 37 ............................. CATCAAATAAAACTTTGCTTAATAATCGTGCTTTTGG 227 29 100.0 38 ............................. CACACTAAATACTGCTATGGTGATAAACACTCTGACCA 160 29 100.0 36 ............................. GAAAGAAAAACCAAGAATAAGAGCCCAGATAAAAGC 95 29 100.0 37 ............................. ATTTCTGGGACTGTTACAGTTCCTAAAGTTGAAAATC 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ====================================== ================== 8 29 100.0 37 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : CCTTGAGATTGTAAAGTAACAAAGTGAAAATGTATAAAGAGGAAAAGAAATGGAAGGAAGAAAAGTATATAGATAAAGAGATATAACACGTATTTTGATTTAACTGTATAAGATGAAAAATTTGATGATTTTGAATAATTTAAAAAATTGTTAATGAAAATAAAAGACTTATTGAGCTAAGGTGCGATTACATAGGAAGGATGCAATAAAAAGAAAAAGGAATCATTGGAATAGAGAATATAATAAATACTTATAAGAATGTAGATGCTTTTAGTTTGTAAAATTATCCCATTTTTATTTTATAGTATGAGTTTTATGATATAATAAAAATATAAAAGTTTTGCAGTGAGCGATTTTTGTGATAAAGTAGGGTTTAACAGTTGAAATATAAAGCGTTGAGAGTGTATGATAACTGTTATCAATTGCACTATTGCTCGCTCACTGCAAATTTAGGAGAATTGTATATGTATAAGTATTGGAAATACTTAATTTATTTTGGG # Right flank : T # 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 [0.0-0.0]%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 48728-47599 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000051.1 Clostridioides difficile strain JV16 056 JV16_contig_52, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 48727 29 100.0 37 ............................. AAGAAATCGGCAAAATACCTTTCATAGCATCCATAAC 48661 29 100.0 36 ............................. ATATAAATTCGTTACTTCATCATAGACGACAGGTCT 48596 29 100.0 36 ............................. ATTTTTTTGCAAGGAACTTTGCAAAAAGAAGAAGAA 48531 29 100.0 37 ............................. CCTCATGACAACAGAATAAATAAAATAAATTAACATA 48465 29 100.0 37 ............................. AAATTTGCAATAACATCTTTCTTTTGAATAAATAATC 48399 29 100.0 37 ............................. TCACTCTGACTAGGTACATCAACAGGTTTGCTAGGAT 48333 29 100.0 36 ............................. TGGGCTATAATAAAAAACAGATGGGGTGGAGCTTCT 48268 29 100.0 37 ............................. GATTGTTCAAGTGGCATATTTAAGTTTTTAAACATTC 48202 29 100.0 38 ............................. ATAAGTGACATACAAAAAAACTTTAAAAGGAAGAACTC 48135 29 100.0 37 ............................. CTTTAGAATCAGTGAGTATTAAGAATCTATATCCATG 48069 29 100.0 37 ............................. AAAAATTTGATTAAAGATTATTCAAAGTCTTTTGATT 48003 29 100.0 36 ............................. AGTAATGTCTTCCAAACATTAAAGGGAATAGTAGTC 47938 29 100.0 35 ............................. TTGTAGTGCCTAGTTACTACTCTCACCCCTTCATG 47874 29 96.6 38 ...........G................. CAGCTTTCTTTTTTAGATTGCATAATTGATTATACTTA 47807 29 100.0 36 ............................. CTGGATGTTTCAAATTCATATCTCATTTCTTCATTC 47742 29 100.0 37 ............................. TATATAAAAAATAAAATAAATAAAAGTAACACTTTAT 47676 29 100.0 18 ............................. TTTTCATCTATTGCATTA Deletion [47630] 47629 29 79.3 0 A.G.A...A........C.........G. | AG [47619] ========== ====== ====== ====== ============================= ====================================== ================== 18 29 98.7 36 GTTTTATATTAACTATATGGAATGTAAAT # Left flank : GATAACCATAATAAAAATAGATATCTATTTTTAGATTAAAAATAATATATGATAAATAAAATAATAAGAGGTAGATACAGTTTTAAGGGAATACAAAAGTTTTTAATTAAACTATGCTTGTTCAGATAGATATTTATTTAAGAAAAAAGACTATTAAAAGCAATATACAAGAATGATATATTAGATTGATTAAACAAGCATAAATATTATGTAAAAAACTTTAAGTTATAGAATTTAAATCTAATGTAGATAGATTACGTTTTTTTGCTTTTATTATGGTATAAATTGGTATCAATATTCAAAAGTAATATATTTATGATATAATAAAATTATAGGAATTTTGCAGTGAGCGATATTTGTGAAAAAATTTGGCGTAACAGTTGAAATATAAGGCGTTGAGAGTGCATGATAAGCGTTATCAATTGCACTATTGCTCGTTCACTGCAAATTTAAGAGAGTTGTATACGTGTAAGTGTTGAAAATACTAAGTTTATTTTGGT # Right flank : TTTTATAATTTTCTTTTAATGTGTTATCTTATGATTATCTAGTTATATTAGCATACAAAAATATAATAAAATTACACTATATTATAAAAACAAAAAGGTAGTATAGAAATCCTATTACCTTTTTATTATTAATTTTATCAGTGTTTTATTATAAATAGCTTACATAATTACACATTTTTTCTGATTAAATAATATGATGCTATTGTTATAATAGATACTAATGCTAATGATGTTATTGCAGTATCTAATCTTCTTATTAATAAACTCATTTCTATATATTCAAGTTCTATTAAATACTGATAAAATATTTCTAGTTTAACAGCTTTTTCTCTATCTATATTTCCATACTTTAACTCTAATTTATCTAAAGATTTTTTATTACAATAATTAACTTTATGTTTAATTAAATATCTTATTGTAGCACCTATTACAATTTTCACTCTAACAAGTATAAATATAATATTCCATCCAAAAGTTAAGAGGGGATATCTTTTTTATGA # 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 : 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [80.0-71.7]%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], // Array 1 7887-7660 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000052.1 Clostridioides difficile strain JV16 056 JV16_contig_53, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 7886 29 100.0 36 ............................. CCTTATACACGACATTATAATATAAGTACGTTTTTA 7821 29 100.0 37 ............................. TGTTTATCTTTTCATTGTTCATGTACATTTCATTGAA 7755 29 100.0 38 ............................. TTTACTGCATTTATACCATCTACACCTTTTATTTTATT 7688 29 89.7 0 .....................C.TA.... | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 97.4 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TACTTATTCTTAAATAAACTAATAATAAGATTAAATATAATAAATCCAGTTGTTGAACCTAAAGCACTAACAGGTACTGATGATATATTAGCGAAATTATTCAATGCTGATAGACATAACATTACTATAGAAACTATAACTAAATAAGATATCACTGTAAAAAATGGAATTGAAATACTTATATTTAACTCTGCTTCATATTCTTTCATAATATCATTCCTTTCAAATTATTTTACTTAACTTTATTATAGCATTTAAACATAATTAAATGTAAAAATACAGTTAAAAATTAATTGAAAATATCAATTATATGTTGTGATATAATAAAATTATAGAAGTTTTGCAGTGAGCGATATTTGTGATAAAATATGGCCTAACACTTGAAATATAATGTATTGAGGACGTATGATAAGTATTATCAATTGTACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCCAAGTTTATTTTGGG # Right flank : TAAAAATACTGAAAAACACTTACTTGAATAGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACTTATATAGTATAATAATCTTATAAAATTATTGTGCTAGGGGGATTTGTTATGTTTTGTTCGAATTGTGGTGCAGAAATCACAGGCGTAGGCAAGTTTTGTTCAAGTTGTGGGGTTGCTGTAGAAACTGAAATTATTGAAGATAATAATATTAAATCAAATGACCTAATCGTTGATGCAAATGGAATAGAAATAAATATGACTGAAATTTATAGAAAATATAGAAAAGAAAAAGTAAATGCAATAAAAAATGTAATGGAAATAAGTGGTTTGAATATAAAGGAAGCAAAAAAAATAGTGGATTCTTCCTTTGAAGAGTTAAAAATCAATTTTATTGATGATACTATGAGCAATTCAGAAAAGGAAAAAATAATAAATACTCAAAATAGAAAAAATAATATTGAAAAAGCTCAACAAGAATCA # Questionable array : NO Score: 5.73 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTTTTAGATTAACTATATGGAATGTAAAT # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [Repeat is AT rich:79.31%AT] # Reference repeat match prediction: NA # Secondary Structural analysis prediction: NA [0.00,0.00] Score: 0/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [75.0-61.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,0.41 Confidence: LOW] # Array family : NA // Array 1 867-1028 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000066.1 Clostridioides difficile strain JV16 056 JV16_contig_67, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================== ===================================== ================== 867 30 100.0 35 .............................. AAATTTCTCTTTATCAAACTTATAAGTTTTACCTA 932 30 100.0 37 .............................. CAGTTTTTCGTTTGATTGGCTCTATCTTTAAAAAAGT 999 30 90.0 0 .....................C.TA..... | ========== ====== ====== ====== ============================== ===================================== ================== 3 30 96.7 36 GTTTTAGATTAACTATATGGAATGTAAATT # Left flank : TTATAGAGTGGAGTTCATACAAAAGATTATCCTCCCAACGATTCGAAGGGAGGTGAGTATGTATGGATAATTTTTTACAAGGTGTACTAGCAAGTATTTTAGCTAGCTATATAGTTTACTTAACTAGTAAGTTATTTAAAAAAGTAAAAAGCCACTCAAACACGACTAAGAGTGACTTTGATTTTAAACTTACAATCAAGTTTAAAAGAAATAAACATTAATTTTTAGAACTTCACTCTAGTTTCAAATAGATTGTAGTTCTTCTTGCTTTTATTATACCACAAATTGGTACAGATATTCAAAAATAATATATTTATGATATAATAAAAATGTAGAGATTTTGCAGTGTTCGATATTTGCGATAAATTGAAGTTTAACAGTTGAGATATGAGGCATTGAGGGTATGTGATAAATCTTATCAATTGCACTACTCATGGTTCACTGCAAATTTGAGAGAGATGCGTATGTGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAAAATACTGAAAAACACTTACTCAGGTAGGTGTTTTTTTATTGAAAGGATGTGATTATAATGTAAAAATTTTACGCATATAGTATAATATTGGTAAAGAATATAATTTAGGGGGATATTATATTATGGATTTTTTTAAAAAAATAGCTAAAACTATTTTATTTTTATTTTTTAATATATGTTTATTTATGTTTACTATAGTTGGAATTTTAGCGATTCAACAAAAAAATATTCCAGCGAGCTTGATTTGTTTTTCAATTGTAGTAATTATACTATTATTATGTTATGGAAAAAAAATAAAACAAATTTCAGTACTAAAGATAAAGGAAAATACTAAGAAAGATGTGAATTTTGACAGTGAGAATTTTCAAAAACAAAATATACTAAATAGAAAAAGTAATATTCTAGAACAGAAAGAAGAAAAACAAAAAATGCCTATAGGTTGTATAGTTATCATTTTATTCGCTATTTTACTTATATCTTTAACTCTTTATACTTT # Questionable array : NO Score: 5.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 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 : GTTTTAGATTAACTATATGGAATGTAAATT # 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: 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 1 37182-36301 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000007.1 Clostridioides difficile strain JV16 056 JV16_contig_7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 37181 29 100.0 37 ............................. GAGGTGCAGGAGGTAAAAGTACCAGTACCCCCAAAAC 37115 29 100.0 37 ............................. AACTATAAAACAGGTGACGAAGCTTTAAAGTTTTATC 37049 29 100.0 37 ............................. AGATTGGTTTCTGTAGAAGTTCCTGGAGAGTCTGAAG 36983 29 100.0 36 ............................. TTAACTTTCTTATTAAGTTGAAAATACTGAGTTAAA 36918 29 100.0 36 ............................. TAAGTTCAAATAGATTCATTTAATTATGAACTTCAC 36853 29 100.0 37 ............................. CTGCGACGGAAGCATATAAAACTCAATGTTTAAAATA 36787 29 100.0 36 ............................. GTGTTAAATTGGTATTTTCTCTTGCTTTTTGATAAA 36722 29 100.0 38 ............................. GTACTATTTCCAACTTTTTTTTCGAGTTCTGAATACTC 36655 29 100.0 37 ............................. TGTAAAATGTGACAATTTCAGTCTCTTTACTCTGCAA 36589 29 100.0 37 ............................. AAAGTTTTGAAAGGCGAAAATCTTATTTTTTCAGATA 36523 29 100.0 37 ............................. AGGATAAAGAAAAGACTCACACAAGATACAGTGTCAG 36457 28 82.8 36 .........C.......-....GA...G. AGAATATTAGCAATATCAACGAGTATTTAGAAACTT 36393 29 75.9 35 A...........TA...CA....A....A TTGTAGAATCAACAATAGCATATACTAAAACATCC 36329 29 75.9 0 ACC.............A.CA...C..... | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 95.3 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : CATTTTATAAATGATGAAAGGTACAAAGTTTTAAAGGTGTGGTGGTAAGTATGTTTGTTATTGTTACTTATGATATTGTTGAAGCAAGGTCGTTAAATAGAATTAGAAGGATACTTAGAAAATATTTGACTTGGACGCAAAATTCTGTTTTTGAAGGCAATATTACTGAAGGAAAGTTACATAAATGTATTTCTGAAATAGAAAATATTATTGATAATAGCGAGGATTCAATCTATGTTTATGAGATAAAAAATCCTAATTCAATTAAAAAGAAATGTTATGGGATTGATAAGTATTCTGATGAAATGTTTATATAGGTTTGCAGTGAGCGATATTTATGCTAAAATAGGTGTTAACAGTTGGAATATAAGGGATTGAAGGTGTATGATAACTGTTATCAATTGCACTACTGCTCGCTCACTGCAAATTTTGATGTTTTTATTGAATTATAATTGCTTGATTGAAGTGTTTTCAATGTATTCAAATATACCTATTTTGGG # Right flank : AAAATACACTTACCTATAAACATTATAAAATCAATACAAAAATGAGGTGAAATAAAATTTATGATAAAGAAATTAAACAATAAAGACATAAATAAAATCATGGAAATATGGGAAAAAAGTACAATCAAAGCACATGACTTTATAAGTAAAGAATACTGGCAAAATAACTATAATACTGTTAAAAACGAATATATACCTATATCAGATACATTTGTATATGATGATGGAGATGAAATAAAAGGATTCATAAGCATAATAGATAAAAGCTTTATAGGAGCTTTATTTATAAAGCCCAAATACCAAAATCTAGGTATCGGAGGTAAACTTTTAGATTATGCAACTAAAAAATATAAAAGTCTAAGCTTAGCAGTATATAAAGATAATAAAAAAGCAGTTGTGTTTTATAATAAAAAAGGTTTTAATATAGTAAAAGAACAAGTAAATGAAGATTCAGGATTTAAAGAGTACATAATGGAATATAGTAAATAATAGGATTACAT # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.76, 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 [19-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [81.7-75.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.91 Confidence: HIGH] # Array family : I-B [Matched known repeat from this family], // Array 1 257119-256233 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000009.1 Clostridioides difficile strain JV16 056 JV16_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 257118 29 100.0 38 ............................. TAGACTACTTTACAAATAAACTTAACGAGTACAATGAC 257051 29 100.0 37 ............................. TTATTTTTATTTAATATTTATCTTTAAAAATTATAAA 256985 29 100.0 37 ............................. TGCGGTAATACCTATCTAATGTTTCTAGCTGTGTACT 256919 29 100.0 36 ............................. AAAATCAAAGGCAACATCATAGTCACGTATATTATC 256854 29 100.0 37 ............................. TAATAGAAACTGTTAATTTTATAAAAGGGTAAAAATG 256788 29 100.0 38 ............................. CTCGAATCAGGATATAACTATTTAAAAGAAAACATAGA 256721 29 100.0 37 ............................. ATGTTTGGGCTAATAGATGGTGATGCTGTCAATTATG 256655 29 100.0 35 ............................. TAGAAGATGATTTAAACTTTTCGGGTAAATCGCCA 256591 29 100.0 37 ............................. TCATTTGAGTTCTAAGTTCATCATTGTATGGTAGTTC 256525 29 100.0 38 ............................. TTTCGACCCGGTATATTTATTTTTTCAATCAAACGTTG 256458 29 100.0 37 ............................. TACTTTTTGAGTTCATAATTTGCATACTTAACCTCTA 256392 29 96.6 37 ..........G.................. TCAGGGTATGACTATTTATCTACTAGAGAAATTGACA 256326 29 100.0 36 ............................. TGCTGTGATTTCACTAATAAAACAATTAATAATTGT 256261 29 86.2 0 ................G....T.CA.... | ========== ====== ====== ====== ============================= ====================================== ================== 14 29 98.8 37 GTTTTAGATTAACTATATGGAATGTAAAT # Left flank : TTTAGAAACATACAAAATAATGTAGATAATGTTGAAAATTTAGAATTCAATGAGTTTGAACTTAAAACCGAAGAAGAAGAGAAGCGAGAACAAGAAAAAAACAGTTATAATAACTACATTCAAAACAGAGTGGTTGACCCACTAGATAGAATAAAGAAACTAAAAGAGTTGCTAGATTCAGGAGCAATTACACAGGAAGAATATAATAAAAAGAAAAAAGAATTATTAGAATAGATAATATAGTAAGCACTTACAAGTATGTAGGTGCTTTTAAATTTACAAAGTATTCCATTTTAATTTTATAGTTTAGATTTTATGATATAATAAAAATATAGAAGTTTTGCAGTGTGCTATATTTGTTACAAAGTAGGGCTTAATACTTGAAATCTAAGATGTTGAGGGTGCGTGATAAGTGTTATCAATTGCACTATTGCCCGCTCACTGCAATTTTAAGAGTATTGTATATATGTAGGTATTGGAAATGCTAAGTTTATTTTGGG # Right flank : TAAATAAACAAAGAAAGCACTTACAAATATGTAGGTGCTTTTATTCTGCTCAAAATTGGTCGGTTGGGTAAAATAATTAGAAAAAGTTAGTAAAAACCTATTGACTGTAACTCGTTACAATATTGTTATTAATCTAACGAGTTACAGAAAAGAGGTGAATAAAATAGCAACTAAAAGTAGGGCAGAGTATATGAAAAATCGTCGAAAAGATAAAAGAGGTTTTAGTGTACTTTTAGACAAAGAAAAGTTAGATAAATTTGATGAAGTATTAGAGGAAAAGAATCTAACCAAGAAAGAATGGCTAGAAGAAAAAATCGACGAGGAACTGGAACAAAAGGAATAAAAAATAAGGGTCACTCCCACCGACCAAAGTTTGAGTAACCCCTATGACGTATACTATCGTATATCAATTATAGTATATGTCATTCCTTAAAAAAAATCAATTATTAAGGAGTGTAATATTATGAAAAATGAATTAATGATGTTTGAAGGAAAAGAGA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [5-0] 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 90995-90768 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAFJUJ010000017.1 Clostridioides difficile strain JV16 056 JV16_contig_18, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================== ================== 90994 29 100.0 36 ............................. TATTTATTGCACCTTCACCATCAAGTGCAACATGTT 90929 29 100.0 38 ............................. TAAACTGTTGGTTCTACTGGTGTTTCTTCTTTATTTAA 90862 29 96.6 37 .......................A..... AGTATAATGTTGAAAAGTTAGAGAGTACAATCAAGAA 90796 29 69.0 0 A.....C.........AAT....AG..TA | ========== ====== ====== ====== ============================= ====================================== ================== 4 29 91.4 37 GTTTTATATTAACTAAGTGGTATGTAAAT # Left flank : ATATTAACTAAGTGGTATGTAAATACAGCAGTAGCAACACCCTCTTCAGCAGCAAAACAA # Right flank : AAATATGTATTTATACTTAAATTCTGTACCTATATAAAAAAGTGAACTCTGTCAACAAAGCACTTTTTTATATAGATAAATTATCATTTTGTTTTAAGATAGAAGATACTAATGATAACTGTTTATCATTAGTATCTGTATGTACATAAAAGTTTAATTTTTTATATAAATTTGCTCTTTAGAAAAATGAGCAGTATCAATAAATATATTGTCTAAATTTTTTCTAGGAACTAGTTGACTAGCTATAAGATTAGCTTCAACTCTTTGATTGTTAGACTATGAAATTAAATTTAAAGGTTCATTCTTGGTCGTATAAATAGCTTTATTATTCGTATGTACTATAACAATTTTTGCCATCTGCTTTTGATAGATAAAGAGCTTTATCAGCTTTAGAAAATAAATCTTTATATAATTTAGTTGAATCATCAGTGAAGGCAATACCAATACTTAATGTTATTTTATGATTGTCCTTTACTTTTATTTTACTTGCATCATTTAAA # Questionable array : NO Score: 5.43 # Score Detail : 1:0, 2:3, 3:0, 4:0.57, 5:0, 6:0.25, 7:0.01, 8:0.6, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [76.7-61.7]%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], //