Array 1 28889-27107 **** Predicted by CRISPRDetect 2.4 *** >NZ_MKLN01000014.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN008083 CFSAN008083_113, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 28888 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 28827 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 28766 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 28705 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 28644 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 28582 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 28521 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 28460 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 28399 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 28338 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 28277 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 28216 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 28155 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 28094 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 28033 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 27972 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 27911 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 27850 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 27788 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 27685 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 27624 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 27563 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 27502 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 27441 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 27380 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 27319 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 27258 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 27197 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 27136 29 96.6 0 A............................ | A [27109] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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 [3-0] 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 82188-83680 **** Predicted by CRISPRDetect 2.4 *** >NZ_MKLN01000204.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN008083 CFSAN008083_40, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 82188 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 82249 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 82310 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 82371 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 82432 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 82493 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 82554 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 82615 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 82676 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 82737 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 82798 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 82859 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 82920 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 82981 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 83042 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 83103 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 83165 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 83226 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 83287 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 83348 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 83409 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 83470 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 83531 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 83592 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 83653 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], //