Array 1 215132-213150 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYPZ01000004.1 Salmonella enterica strain CVM 43756 43756_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 215131 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 215070 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 215009 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 214948 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 214887 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 214826 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 214765 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 214704 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 214643 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 214582 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 214521 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 214460 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 214399 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 214338 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 214277 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 214216 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 214155 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 214094 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 214033 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 213972 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 213911 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 213850 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 213789 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 213728 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 213667 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 213606 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 213545 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 213484 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 213423 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 213362 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 213301 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 213240 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 213179 29 100.0 0 ............................. | A [213152] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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 234867-232764 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYPZ01000004.1 Salmonella enterica strain CVM 43756 43756_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 234866 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 234805 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 234744 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 234683 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 234621 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 234560 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 234499 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 234438 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 234377 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 234316 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 234255 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 234194 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 234133 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 234072 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 234011 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 233950 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 233889 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 233828 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 233767 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 233706 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 233645 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 233584 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 233523 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 233462 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 233401 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 233340 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 233279 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 233218 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 233157 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 233096 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 233035 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 232974 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 232913 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 232852 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 232791 28 79.3 0 ..G............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 97.7 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.93 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.78, # 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 : GTATTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,6] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTATTCCCCGCGCCAGCGGGGATAAACCG 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 [10-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //