Array 1 407442-408627 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMU01000004.1 Salmonella enterica subsp. enterica serovar Newport str. CVM34519 contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 407442 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 407503 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 407564 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 407625 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 407686 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 407747 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 407808 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 407869 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 407930 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 407991 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 408052 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 408113 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 408174 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 408235 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 408296 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 408357 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 408418 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 408479 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 408540 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 408600 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 2 425297-426729 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMU01000004.1 Salmonella enterica subsp. enterica serovar Newport str. CVM34519 contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 425297 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 425358 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 425419 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 425480 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 425541 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 425602 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 425663 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 425724 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 425785 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 425846 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 425907 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 425968 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 426029 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 426090 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 426151 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 426212 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 426273 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 426334 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 426395 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 426456 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 426517 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 426578 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 426639 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 426700 29 100.0 0 ............................. | A [426727] ========== ====== ====== ====== ============================= ================================ ================== 24 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], //