Array 1 712-12 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXHT01000017.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_2085 NODE_17_length_89047_cov_0.660143, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 711 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 650 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 589 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 528 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 467 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 406 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 345 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 284 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 223 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 162 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 101 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 40 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GAATTATTTCTG # 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [15.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 16842-15959 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXHT01000060.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_2085 NODE_60_length_16884_cov_0.643755, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16841 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 16780 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 16719 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 16658 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 16597 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 16536 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 16474 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 16413 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 16352 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16291 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16230 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16169 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16108 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16047 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 15986 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 15 29 97.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATAAACAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 216-1692 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXHT01000066.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_2085 NODE_66_length_12519_cov_0.599887, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 216 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 277 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 339 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 400 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 461 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 522 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 583 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 644 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 705 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 766 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 827 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 888 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 949 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 1011 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 1114 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 1175 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 1236 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1297 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1358 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1419 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1480 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1541 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1602 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1663 29 96.6 0 A............................ | A [1689] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 : GTGTTCCCCGCGCCAGCGGGGATAAACCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //