Array 1 252107-250491 **** Predicted by CRISPRDetect 2.4 *** >NZ_PJLN01000004.1 Salmonella enterica subsp. enterica serovar Newport strain 1087 1087M_S11_L001_R1_001__p__trimmed__p__contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 252106 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 252045 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 251984 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 251923 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 251862 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 251801 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 251740 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 251679 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 251618 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 251557 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 251496 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 251435 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 251374 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 251313 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 251252 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 251191 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 251130 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 251069 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 251008 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 250947 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 250886 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 250825 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 250764 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 250703 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 250642 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 250581 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 250520 29 100.0 0 ............................. | A [250493] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%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 269962-268776 **** Predicted by CRISPRDetect 2.4 *** >NZ_PJLN01000004.1 Salmonella enterica subsp. enterica serovar Newport strain 1087 1087M_S11_L001_R1_001__p__trimmed__p__contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 269961 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 269900 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 269839 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 269778 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 269717 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 269656 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 269595 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 269534 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 269473 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 269412 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 269351 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 269290 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 269229 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 269168 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 269107 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 269046 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 268985 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 268924 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 268863 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 268803 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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], //