Array 1 290044-291659 **** Predicted by CRISPRDetect 2.4 *** >NZ_MATB01000008.1 Salmonella enterica subsp. enterica serovar Infantis strain SI01 contig16, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 290044 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 290106 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 290167 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 290228 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 290289 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 290350 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 290411 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 290472 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 290533 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 290594 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 290655 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 290716 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 290777 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 290838 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 290899 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 290960 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 291021 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 291082 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 291144 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 291205 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 291266 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 291327 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 291388 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 291449 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 291510 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 291571 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 291632 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 307942-309839 **** Predicted by CRISPRDetect 2.4 *** >NZ_MATB01000008.1 Salmonella enterica subsp. enterica serovar Infantis strain SI01 contig16, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 307942 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 308003 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 308064 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 308125 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 308187 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 308248 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 308309 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 308370 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 308431 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 308492 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 308553 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 308614 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 308675 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 308736 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 308797 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 308858 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 308919 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 308980 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 309041 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 309102 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 309160 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 309221 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 309282 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 309343 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 309404 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 309465 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 309526 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 309587 29 100.0 11 ............................. CGGCCAGCCAT Deletion [309627] 309627 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 309688 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 309749 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 309810 29 93.1 0 A...........T................ | A [309836] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.05, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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 [0-11] 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], //