Array 1 3077953-3075988 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039588.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014861 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3077952 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3077891 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3077830 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3077769 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3077708 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3077647 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3077586 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3077524 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3077463 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3077402 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3077341 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3077280 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3077219 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3077158 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3077097 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3077036 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3076975 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3076914 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3076853 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3076792 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3076731 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3076669 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3076566 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3076505 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3076444 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3076383 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3076322 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3076261 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3076200 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3076139 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3076078 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3076017 29 96.6 0 A............................ | A [3075990] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 3095577-3094084 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039588.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014861 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3095576 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3095515 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3095454 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3095393 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3095332 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3095271 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3095210 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3095149 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3095088 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3095027 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3094966 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3094905 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3094844 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3094783 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3094722 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3094661 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3094599 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3094538 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3094477 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3094416 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3094355 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3094294 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3094233 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3094172 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3094111 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] 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], //