Array 1 162703-160805 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJI01000011.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N47714 N47714_contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 162702 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 162641 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 162580 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 162519 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 162457 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 162396 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 162335 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 162274 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 162213 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 162152 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 162091 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 162030 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 161969 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 161908 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 161847 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 161786 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 161725 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 161664 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 161603 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 161542 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 161484 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 161423 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 161362 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 161301 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 161240 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 161179 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 161118 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 161057 29 100.0 11 ............................. CGGCCAGCCAT Deletion [161018] 161017 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 160956 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 160895 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160834 29 93.1 0 A...........T................ | A [160807] ========== ====== ====== ====== ============================= ================================= ================== 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 180601-178985 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJI01000011.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N47714 N47714_contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180600 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 180538 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 180477 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 180416 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 180355 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 180294 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 180233 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 180172 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 180111 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 180050 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 179989 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 179928 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 179867 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 179806 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 179745 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 179684 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 179623 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 179562 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 179500 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 179439 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 179378 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 179317 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 179256 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 179195 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 179134 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 179073 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 179012 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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], //