Array 1 162879-159861 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLZ01000012.1 Salmonella enterica subsp. enterica serovar Liverpool strain CVM N50444 N50444_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 162878 29 96.6 32 .............T............... GACGTCGCTATTGATCGGGAAAAGGAGCGTCG 162817 29 96.6 32 .............T............... TATTCCTTCAGGTGATAAGGACGTTCTGTTTG 162756 29 96.6 32 .............T............... CCCCGCGAGAAAACATCCAAATGCATTATCTT 162695 29 96.6 32 .............T............... GATCCGCCAGGCGATAGCGCGCGCGGGTCCAT 162634 29 96.6 32 .............T............... TACCTACCGAAAACCTCTTCTCCGGCACCGCT 162573 29 96.6 32 .............T............... CAATTTTTAACGATCACTCAGATAAAACAGCA 162512 29 96.6 32 .............T............... GTGGTAATCATGACGCATCGTCACCACGTCAA 162451 29 96.6 32 .............T............... ATAACGACGACGATATCGCCGTTATACTGGGC 162390 29 96.6 32 .............T............... TTCATCAATTCGGACAAAGTCGGCCACGATGC 162329 29 96.6 32 .............T............... GCGAGGTTCTGCGCCCTGCTTCCAGTTCAAAA 162268 29 96.6 32 .............T............... ACGCGGTGTATCAGCAAACCTTCGATGCGGAG 162207 29 96.6 32 .............T............... GACGTTGTAGACCAGCGCCTTACTGGTGATGA 162146 29 96.6 32 .............T............... CGACCCCCCATTTTTCTGAATCGTAGACGAAC 162085 29 93.1 32 ............TT............... CAATTTGTTTGTTATCCCTGGTGAGTGCAACA 162024 29 96.6 32 .............T............... CGTATTCCCGGCACTGTTTATGGCATTGGCCC 161963 29 96.6 32 .............T............... CCAGCAGTCACTATTGATTCAAATGTTTTATA 161902 29 96.6 32 .............T............... TACCAGACCATCATTGATTTCAATGTAATTAC 161841 29 96.6 32 .............T............... CAGGGCAACGTCGTCATCGATGAGGCTGCGTT 161780 29 96.6 32 .............T............... CGGCCCCGTATAAATCTCGTGGCGCACAAATG 161719 29 96.6 32 .............T............... AAGAACGCTGCTGGCAGTCTGACCCTATTGAT 161658 29 96.6 32 .............T............... CGCCGTCACATCCTGATTTATCCAGTGTAGGG 161597 29 93.1 32 .G...........T............... TTTTTAGTGCGTTTTTTAACCTTTGGTGGAAT 161536 29 96.6 32 .............T............... GGAAAAACACGTATCTGGTGGACAACCGGTGC 161475 29 96.6 32 .............T............... GCCGTTACTGAGCGCAGCGGGTTAGAGGTAAA 161414 29 96.6 32 .............T............... GGGCTTTCCCTTAGTGCCTGGACTATTGAGGC 161353 29 100.0 32 ............................. CGCAAGAAGGAGAGCAGTTTGCTCACTACCGG 161292 29 100.0 32 ............................. CGATTTATGTAAAGGGTGGCCTGGAAGGGGAT 161231 29 100.0 32 ............................. CAATGGGCGAAGGGCAGCGAGTTCGGCTGGGT 161170 29 100.0 32 ............................. TCGTAAATCTGTTTCAGTGTTTTAGCGCGCAG 161109 29 100.0 32 ............................. CTCTCGCCGCAGCTACGGCACAGGGCGCAAAA 161048 29 100.0 32 ............................. CTATTTTAATTTGCTCTATGTTTGTGCTTGCT 160987 29 100.0 32 ............................. GATTGCCTTTACCGTCCAGCAATATATTTATA 160926 29 100.0 31 ............................. GGGATACGGGTAGTTTGAGTGATGCGGGGGG 160866 29 100.0 32 ............................. GTAGCCTTCAGACACTTTAGCCAGGTTCCCTA 160805 29 100.0 32 ............................. ACAAATCGCGAACTGGTCGATGCGGCCATTGA 160744 29 100.0 32 ............................. AATATTCAGTTTCAAATCGATCAATTGTGCGT 160683 29 100.0 32 ............................. GATACTCTACGCGATCCACATACATGGGCCCC 160622 29 100.0 32 ............................. TAGGTTTAACTAAGCTAATAAAATGGGTCCGA 160561 29 100.0 32 ............................. GTAATTTCCCAAAATTTGAATCAGACTTAATC 160500 29 100.0 32 ............................. TGGCCTTCCTTCTACCGCTTAGCAGAAGAATG 160439 29 100.0 32 ............................. CGCTCCTTCAGGTCAATGATTTCGTGAATACG 160378 29 100.0 32 ............................. TGCAGTCAAAACAGATTGTTCGCGAATCGGGC 160317 29 100.0 32 ............................. AAAAACACTTCCGTAGCCAATACCATTGAACA 160256 29 100.0 32 ............................. CAGTAGGCCGCGCTTACTATCTCAGAGAGGCT 160195 29 100.0 32 ............................. CAGACCAGCCGTAACATCATGCTGCTCATCAT 160134 29 96.6 32 ...C......................... TCTGGTCATAACATCGCAGCAAAATCAAAAGA 160073 29 100.0 32 ............................. GGGATATTTAGACGGGCGCAACGTGCGGAACT 160012 29 100.0 32 ............................. CCCTGCGTCAGCGCAGCAAATGTCACCTCATC 159951 29 100.0 32 ............................. CAGGGTAAGTCCCGGACGGCATCGTTGCTGAA 159890 29 100.0 0 ............................. | A [159863] ========== ====== ====== ====== ============================= ================================ ================== 50 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTACCGCCAGCGATACCAGAACCTGAATCCCTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTAGTCACGGAAAACGTACCGCCGCGCCTGCGGGGTCGCCTTGCCGTCTGGTTACTGGAGATTCGTGCCGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCAAAAACCTCCGCATCATTACAACAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.85 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.69, # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [2-2] Score: 0/0.41 # AT richness analysis in flanks prediction: R [50.0-73.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 182072-179175 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLZ01000012.1 Salmonella enterica subsp. enterica serovar Liverpool strain CVM N50444 N50444_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 182071 29 100.0 32 ............................. ATTGATGATTTTATAGCTACTACTCCATATCA 182010 29 100.0 32 ............................. TTTGGTGCACCGCCAATGTCTCGTTATCAGAA 181949 29 100.0 32 ............................. ACCCGGCAGGAAGTAGATTCATTTGCTGATGA 181888 29 100.0 32 ............................. GCAGCGTTACAACCTGATAGAATGGGGGTATT 181827 29 100.0 32 ............................. GGGGTATTCATAAAAGTGTCTGTTGGTGAGGA 181766 29 100.0 32 ............................. ATGGAACAGCTATGGACGGCGAACGCCACCGC 181705 29 100.0 32 ............................. AGCGCTAAAGAAGAAAAAGAGAAAGCAACTGA 181644 29 100.0 32 ............................. ATCCGAGTAGCTCAACTGGGGGATATCCCCAA 181583 29 100.0 32 ............................. TCGCTTTTACGTATATTGCCAGGATTATTATT 181522 29 100.0 32 ............................. TTATGAGCGCCTGCGGCTCGCCGCTACCGAGC 181461 29 100.0 32 ............................. GGCAGCGGTCCGGTGAGGCGCTTGCACACAAA 181400 29 100.0 32 ............................. AGCTAGATTTATATTCGTGTCGGGATCCTGCG 181339 29 100.0 32 ............................. CCAGGGAAGAGGCAACTCGCCGCATTATGCTG 181278 29 100.0 33 ............................. GTTTTTGATGACGGAGCCATATCAGTTAATTGC 181216 29 100.0 32 ............................. CCCTCCGAAAGAGTCAACATGATCACTCCCCC 181155 29 100.0 32 ............................. GAAATAGAGTTGCTCTTCGGCATCGTCAAAAT 181094 29 100.0 32 ............................. CGCCCCGAGGGGCGCTATTCAATAACGGTTAG 181033 29 100.0 32 ............................. TTCGCGCCAGATTTTAGCGAGGTGATACAGGT 180972 29 100.0 32 ............................. GCGGCGTTTTCGGCGGCGGTGCCGTACAGTTC 180911 29 100.0 33 ............................. GCCACCACACACCTGCTAAAAAATACTACCGCC 180849 29 100.0 32 ............................. TGGCAACTAGCGTTCTTTATTCGTGGGATGAG 180788 29 100.0 32 ............................. CACGCAGTAGCCGTTTTTCATCCTCGCTCAGA 180727 29 100.0 32 ............................. CTGGAGTCTCTGTTTGTGGTCTTGGGAACGCA 180666 29 100.0 32 ............................. TGGTCACTACACCAGCGGGAGAGGCAACTTTA 180605 29 100.0 32 ............................. ACGCTTGCCAGTGGTCCGTTTGGCAAATATGC 180544 29 100.0 32 ............................. GTGTCTCGTTGCGCCACCGGCAACTCGTGGCC 180483 29 100.0 33 ............................. CACCTCATGAACCGCACCGCAGCGATTCACCGA 180421 29 100.0 32 ............................. CTGCTGATTTTCCTGGTGTTAAAAGCGGTGAG 180360 29 100.0 32 ............................. TCAGCCCCGTTACATTCCCGTCCAATGACGAA 180299 29 100.0 32 ............................. TCTGTTGCTATCTGGCTATCGGCATCGCATTC 180238 29 100.0 32 ............................. GTGACGGGAACCGAAAACGCGCAGGATGTAAT 180177 29 100.0 32 ............................. TCAGTATCATGATCACTGGCTCCCGACTGGGG 180116 29 100.0 31 ............................. ATCCCCCTGAACGTTACCGAGTACTGCCATT 180056 29 100.0 32 ............................. CGTAATGACCCGGCCGCAACCGAAGCCGCTCA 179995 29 100.0 32 ............................. CCATCGAGCCTGCCGACATCGCCAGTGATTCA 179934 29 100.0 32 ............................. GCTCTATCATTCGTCCTGCGTGCTCAAAACAC 179873 29 100.0 32 ............................. GCTGTATTGTTTGCCGTAACGAAATGAACGTT 179812 29 100.0 32 ............................. GGATAGGTGAGGGGGTTGTCTTCACTGCATCA 179751 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 179690 29 100.0 32 ............................. CGCTCTTCGTGGCGCTTGTTTGCTTATGGAGG 179629 29 96.6 32 .T........................... CGGCACCAGCTAGTGGTGTTTTTGCGGGTAGA 179568 29 96.6 32 .T........................... ACGGCGGAACGCTGGCCGATAAGGTACGTTGC 179507 29 93.1 32 .T.C......................... AACCAAAACAGACGCGGGGCCATTCGCTACAC 179446 29 93.1 32 .T...........T............... GCGCGAGTAGACGAGGCTAGCTGCAATATCGC 179385 29 93.1 32 .T...........T............... AAAACATAGTGAGGTATAATCCTTAACAGGTT 179324 29 96.6 32 .T........................... AAGGTTAGCGTTGTCATTGATCTGGTCGGCAA 179263 29 96.6 32 .T........................... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGA 179202 28 79.3 0 .T.............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 48 29 98.9 32 GCGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTACAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCGCGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTCTACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGGGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 : GCGTTCCCCGCGCCAGCGGGGATAAACCG # 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 [3,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GCGTTCCCCGCGCCAGCGGGGATAAACCG 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 [8-0] 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], //