Array 1 3049362-3047397 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039856.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014876 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3049361 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3049300 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3049239 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3049178 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3049117 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3049056 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3048995 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3048933 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3048872 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3048811 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3048750 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3048689 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3048628 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3048567 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3048506 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3048445 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3048384 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3048323 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3048262 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3048201 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3048140 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3048078 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3047975 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3047914 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3047853 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3047792 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3047731 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3047670 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3047609 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3047548 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3047487 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3047426 29 96.6 0 A............................ | A [3047399] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3066986-3065493 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039856.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014876 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3066985 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3066924 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3066863 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3066802 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3066741 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3066680 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3066619 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3066558 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3066497 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3066436 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3066375 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3066314 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3066253 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3066192 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3066131 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3066070 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3066008 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3065947 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3065886 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3065825 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3065764 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3065703 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3065642 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3065581 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3065520 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], //