Array 1 215167-213185 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQX01000012.1 Salmonella enterica strain CVM 43780 43780_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 215166 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 215105 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 215044 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 214983 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 214922 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 214861 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 214800 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 214739 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 214678 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 214617 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 214556 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 214495 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 214434 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 214373 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 214312 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 214251 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 214190 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 214129 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 214068 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 214007 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 213946 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 213885 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 213824 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 213763 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 213702 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 213641 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 213580 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 213519 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 213458 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 213397 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 213336 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 213275 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 213214 29 100.0 0 ............................. | A [213187] ========== ====== ====== ====== ============================= ================================ ================== 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 234902-232799 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQX01000012.1 Salmonella enterica strain CVM 43780 43780_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 234901 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 234840 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 234779 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 234718 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 234656 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 234595 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 234534 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 234473 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 234412 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 234351 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 234290 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 234229 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 234168 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 234107 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 234046 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 233985 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 233924 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 233863 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 233802 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 233741 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 233680 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 233619 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 233558 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 233497 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 233436 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 233375 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 233314 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 233253 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 233192 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 233131 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 233070 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 233009 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 232948 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 232887 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 232826 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], //