Array 1 4188391-4189883 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP061119.1 Salmonella enterica subsp. enterica serovar Typhimurium strain S520 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4188391 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 4188452 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 4188513 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 4188574 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 4188635 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 4188696 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 4188757 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 4188818 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 4188879 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 4188940 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 4189001 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 4189062 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 4189123 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 4189184 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 4189245 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 4189306 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 4189368 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 4189429 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 4189490 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 4189551 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 4189612 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 4189673 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 4189734 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 4189795 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 4189856 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 4206015-4207979 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP061119.1 Salmonella enterica subsp. enterica serovar Typhimurium strain S520 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 4206015 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 4206076 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 4206137 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 4206198 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 4206259 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 4206320 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 4206381 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 4206443 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 4206504 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 4206565 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 4206626 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 4206687 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 4206748 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 4206809 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 4206870 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 4206931 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 4206992 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 4207053 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 4207114 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 4207175 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 4207236 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 4207298 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 4207359 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [4207401] 4207401 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 4207462 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 4207523 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 4207584 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 4207645 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 4207706 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 4207767 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 4207828 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 4207889 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 4207950 29 96.6 0 A............................ | A [4207976] ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.04, 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 [1-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //