Array 1 2306991-2308483 **** Predicted by CRISPRDetect 2.4 *** >NZ_LN999997.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate SO4698-09 chromosome I Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2306991 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 2307052 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 2307113 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 2307174 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 2307235 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 2307296 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 2307357 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 2307418 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 2307479 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 2307540 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 2307601 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 2307662 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 2307723 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 2307784 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 2307845 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 2307906 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 2307968 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 2308029 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 2308090 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 2308151 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 2308212 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 2308273 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 2308334 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 2308395 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 2308456 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 2324615-2326579 **** Predicted by CRISPRDetect 2.4 *** >NZ_LN999997.1 Salmonella enterica subsp. enterica serovar Typhimurium isolate SO4698-09 chromosome I Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 2324615 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 2324676 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 2324737 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 2324798 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 2324859 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 2324920 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 2324981 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 2325043 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 2325104 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 2325165 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 2325226 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 2325287 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 2325348 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 2325409 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 2325470 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 2325531 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 2325592 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 2325653 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 2325714 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 2325775 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 2325836 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 2325898 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 2326001 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 2326062 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 2326123 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 2326184 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 2326245 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 2326306 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2326367 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2326428 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2326489 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2326550 29 96.6 0 A............................ | A [2326576] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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], //