Array 1 3127458-3125981 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP041026.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain SA20143792 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3127457 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3127396 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3127334 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3127273 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3127212 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3127151 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3127090 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3127029 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3126968 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3126907 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3126846 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3126785 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3126724 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3126662 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3126559 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3126498 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3126437 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3126376 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3126315 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3126254 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3126193 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3126132 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3126071 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3126010 29 96.6 0 A............................ | A [3125983] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3145489-3143569 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP041026.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain SA20143792 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3145488 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3145427 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3145366 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 3145305 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 3145244 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 3145183 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 3145122 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 3145061 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3145000 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3144939 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3144878 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3144817 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3144756 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3144695 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3144634 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3144573 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3144512 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3144451 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3144390 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3144329 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3144268 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3144207 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3144146 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3144084 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3144023 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3143962 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3143901 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3143840 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3143779 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3143718 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3143657 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3143596 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 32 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 : 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //