Array 1 30075-28110 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIF01000053.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM7, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 30074 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 30013 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 29952 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 29891 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 29830 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 29769 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 29708 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 29646 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 29585 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 29524 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 29463 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 29402 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 29341 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 29280 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 29219 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 29158 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 29097 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 29036 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 28975 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 28914 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 28853 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 28791 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 28688 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 28627 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 28566 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 28505 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 28444 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 28383 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 28322 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 28261 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 28200 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 28139 29 96.6 0 A............................ | A [28112] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 1 5487-6979 **** Predicted by CRISPRDetect 2.4 *** >NZ_CDIF01000127.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate STM7, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5487 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5548 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5609 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5670 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 5731 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 5792 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5853 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 5914 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5975 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 6036 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6097 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 6158 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6219 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6280 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6341 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6402 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6464 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6525 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6586 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6647 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6708 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6769 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6830 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6891 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6952 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], //