Array 1 5281-6466 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCBP01000114.1 Salmonella enterica subsp. enterica serovar Newport strain SE76 NEWPORT_S3_trimmed_contig_124, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5281 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 5342 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 5403 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 5464 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 5525 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 5586 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 5647 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 5708 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 5769 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 5830 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 5891 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 5952 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 6013 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 6074 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 6135 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 6196 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 6257 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 6318 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 6379 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 6439 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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: 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 [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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], // Array 1 52-1606 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCBP01000077.1 Salmonella enterica subsp. enterica serovar Newport strain SE76 NEWPORT_S3_trimmed_contig_83, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 52 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 113 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 174 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 235 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 296 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 357 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 418 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 479 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 540 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 601 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 662 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 723 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 784 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 845 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 906 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 967 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 1028 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 1089 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 1150 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 1211 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 1272 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 1333 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 1394 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 1455 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 1516 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 1577 29 100.0 0 ............................. | A [1604] ========== ====== ====== ====== ============================= ================================ ================== 26 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCCAGCGGGGATAAACCGCTGGAACGGCAGTATTTAAAAGGGGTTATTGAG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [41.7-48.3]%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], //