Array 1 317040-317982 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIQ01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068043 CFSAN068043_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 317040 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 317101 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 317162 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 317223 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 317284 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 317345 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 317406 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 317467 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 317528 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 317589 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 317650 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 317711 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 317772 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 317833 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 317894 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 317955 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-6] 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 334114-335956 **** Predicted by CRISPRDetect 2.4 *** >NZ_PHIQ01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN068043 CFSAN068043_contig_18, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 334114 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 334175 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 334236 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 334297 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 334358 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 334419 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 334480 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 334542 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 334603 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 334664 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 334725 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 334786 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 334847 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 334908 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 334969 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 335030 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 335091 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 335152 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 335213 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 335275 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 335336 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [335378] 335378 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 335439 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 335500 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 335561 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 335622 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 335683 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 335744 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 335805 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 335866 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 335927 29 96.6 0 A............................ | A [335953] ========== ====== ====== ====== ============================= ================================= ================== 31 29 98.4 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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], //