Array 1 107870-106393 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSM01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_4372 NODE_13_length_124982_cov_3.43737, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107869 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107808 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107746 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107685 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107624 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107563 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107502 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107441 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107380 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107319 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107258 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107197 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107136 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 107074 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106971 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106910 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106849 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106788 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106727 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106666 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106605 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106544 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106483 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106422 29 96.6 0 A............................ | A [106395] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 2 124983-123981 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSM01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_4372 NODE_13_length_124982_cov_3.43737, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 124982 26 89.7 32 ---.......................... AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124924 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 124863 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 124802 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 124741 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 124680 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 124619 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 124558 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 124496 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 124435 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 124374 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 124313 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 124252 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 124191 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 124130 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 124069 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 124008 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 97.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [8-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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 88331-89274 **** Predicted by CRISPRDetect 2.4 *** >NZ_MYSM01000022.1 Salmonella enterica subsp. enterica serovar Typhimurium strain BCW_4372 NODE_22_length_89331_cov_3.30698, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 88331 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 88392 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 88453 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 88514 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 88575 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 88636 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 88697 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 88758 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 88819 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88880 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88941 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 89002 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 89063 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 89124 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 89185 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 89246 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : AATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGTTCCCCGCGCCAGCGGGGATAA # 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: 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-45.0]%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], //