Array 1 164089-162473 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAML01000013.1 Salmonella enterica subsp. enterica serovar Newport str. CVM20776 contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 164088 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 164027 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 163966 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 163905 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 163844 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 163783 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 163722 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 163661 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 163600 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 163539 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 163478 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 163417 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 163356 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 163295 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 163234 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 163173 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 163112 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 163051 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 162990 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 162929 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 162868 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 162807 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 162746 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 162685 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 162624 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 162563 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 162502 29 100.0 0 ............................. | A [162475] ========== ====== ====== ====== ============================= ================================ ================== 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 181700-180758 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAML01000013.1 Salmonella enterica subsp. enterica serovar Newport str. CVM20776 contig_13, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 181699 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 181638 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 181577 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 181516 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 181455 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 181394 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 181333 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 181272 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 181211 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 181150 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 181089 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 181028 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 180967 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 180906 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 180845 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 180785 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # 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: 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], //