Array 1 361304-362918 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIXAY010000001.1 Salmonella enterica strain 139 contig00001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 361304 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 361365 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 361426 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 361487 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 361548 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 361609 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 361670 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 361731 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 361792 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 361853 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 361914 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 361975 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 362036 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 362097 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 362158 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 362219 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 362280 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 362341 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 362403 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 362464 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 362525 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 362586 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 362647 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 362708 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 362769 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 362830 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 362891 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 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 379051-380527 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAIXAY010000001.1 Salmonella enterica strain 139 contig00001, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 379051 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 379112 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 379174 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 379235 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 379296 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 379357 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 379418 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 379479 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 379540 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 379601 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 379662 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 379723 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 379784 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 379846 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 379949 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 380010 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 380071 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 380132 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 380193 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 380254 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 380315 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 380376 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 380437 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 380498 29 96.6 0 A............................ | A [380524] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 [1-3] 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], //