Array 1 506300-507241 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMK01000003.1 Salmonella enterica subsp. enterica serovar Newport str. CVM18000 contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 506300 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 506361 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 506422 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 506483 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 506544 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 506605 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 506666 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 506727 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 506788 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 506849 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 506910 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 506971 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 507032 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 507093 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 507154 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 507214 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 2 523911-525526 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMK01000003.1 Salmonella enterica subsp. enterica serovar Newport str. CVM18000 contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 523911 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 523972 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 524033 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 524094 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 524155 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 524216 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 524277 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 524338 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 524399 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 524460 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 524521 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 524582 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 524643 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 524704 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 524765 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 524826 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 524887 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 524948 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 525009 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 525070 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 525131 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 525192 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 525253 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 525314 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 525375 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 525436 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 525497 29 100.0 0 ............................. | A [525524] ========== ====== ====== ====== ============================= ================================ ================== 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], //