Array 1 6355-7970 **** Predicted by CRISPRDetect 2.4 *** >NZ_PDAX01000042.1 Salmonella enterica subsp. enterica serovar Newport strain AM12179 NODE_42_length_37659_cov_26.3872, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 6355 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 6416 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 6477 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 6538 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 6599 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 6660 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 6721 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 6782 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 6843 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 6904 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 6965 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 7026 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 7087 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 7148 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 7209 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 7270 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 7331 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 7392 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 7453 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 7514 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 7575 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 7636 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 7697 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 7758 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 7819 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 7880 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 7941 29 100.0 0 ............................. | A [7968] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # 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: F [68.3-48.3]%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], // Array 1 5325-6510 **** Predicted by CRISPRDetect 2.4 *** >NZ_PDAX01000115.1 Salmonella enterica subsp. enterica serovar Newport strain AM12179 NODE_115_length_12940_cov_26.0464, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5325 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 5386 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 5447 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 5508 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 5569 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 5630 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 5691 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 5752 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 5813 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 5874 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 5935 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 5996 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 6057 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 6118 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 6179 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 6240 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 6301 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 6362 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 6423 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 6483 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], //