Array 1 108082-106184 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQJQ01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain SC10 contig4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 108081 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 108020 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 107959 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 107898 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 107836 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 107775 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 107714 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 107653 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 107592 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 107531 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 107470 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 107409 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 107348 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 107287 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 107226 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 107165 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 107104 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 107043 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 106982 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 106921 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 106863 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 106802 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 106741 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 106680 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 106619 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 106558 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 106497 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 106436 29 100.0 11 ............................. CGGCCAGCCAT Deletion [106397] 106396 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 106335 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 106274 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106213 29 93.1 0 A...........T................ | A [106186] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 125797-124364 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQJQ01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain SC10 contig4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 125796 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 125734 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 125673 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 125612 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 125551 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 125490 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 125429 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 125368 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 125307 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 125246 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 125185 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 125124 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 125063 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 125002 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 124941 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 124879 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 124818 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 124757 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 124696 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 124635 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 124574 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 124513 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 124452 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 124391 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //