Array 1 964246-965861 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP019202.1 Salmonella enterica subsp. enterica serovar Infantis strain CFSAN003307 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 964246 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 964308 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 964369 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 964430 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 964491 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 964552 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 964613 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 964674 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 964735 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 964796 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 964857 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 964918 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 964979 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 965040 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 965101 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 965162 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 965223 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 965284 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 965346 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 965407 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 965468 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 965529 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 965590 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 965651 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 965712 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 965773 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 965834 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 982144-984041 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP019202.1 Salmonella enterica subsp. enterica serovar Infantis strain CFSAN003307 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 982144 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 982205 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 982266 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 982327 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 982389 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 982450 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 982511 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 982572 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 982633 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 982694 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 982755 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 982816 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 982877 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 982938 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 982999 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 983060 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 983121 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 983182 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 983243 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 983304 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 983362 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 983423 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 983484 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 983545 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 983606 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 983667 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 983728 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 983789 29 100.0 11 ............................. CGGCCAGCCAT Deletion [983829] 983829 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 983890 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 983951 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 984012 29 93.1 0 A...........T................ | A [984038] ========== ====== ====== ====== ============================= ================================= ================== 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], //