Array 1 3122465-3120500 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP036174.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS009777 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3122464 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3122403 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3122342 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3122281 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3122220 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3122159 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3122098 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3122036 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3121975 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3121914 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3121853 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3121792 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3121731 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3121670 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3121609 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3121548 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3121487 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3121426 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3121365 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3121304 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3121243 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3121181 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3121078 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3121017 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3120956 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3120895 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3120834 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3120773 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3120712 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3120651 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3120590 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3120529 29 96.6 0 A............................ | A [3120502] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3140089-3138596 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP036174.1 Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain PNCS009777 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3140088 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3140027 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3139966 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3139905 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3139844 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3139783 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3139722 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3139661 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3139600 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3139539 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3139478 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3139417 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3139356 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3139295 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3139234 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3139173 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3139111 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3139050 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3138989 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3138928 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3138867 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3138806 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3138745 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3138684 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3138623 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], //