Array 1 219197-217397 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPMA01000010.1 Salmonella enterica subsp. enterica serovar Takoradi strain CFSAN059889 CFSAN059889_10, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 219196 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 219135 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 219074 29 100.0 32 ............................. ATCATTCGCTCATTTTTGAAGTGGACCGGTAG 219013 29 96.6 32 .............T............... GATGATCTGGTGGCCCTCCCTCAGCGATGGCA 218952 29 100.0 32 ............................. CGCCGTCACATCCTGATTTATCCAGTGTAGGG 218891 29 100.0 32 ............................. ATCGCGCAGAACTGGCGTAATAGTCAGGAAGC 218830 29 100.0 32 ............................. TTAGGTGAGTTTGGGATGACCCCGGCTAGTCG 218769 29 100.0 32 ............................. ACAATAAAATCAGCGCTGACGTTGTCACGATG 218708 29 100.0 32 ............................. GCGTTACAGGAGGCTGTAGCAATGGGGGCTAA 218647 29 100.0 32 ............................. GTCTGCCTAATATCAAAATGGAGGTATGGGGT 218586 29 100.0 32 ............................. CGCTGGATAGGTGAGCGAATAGATCGGGAGTT 218525 29 100.0 32 ............................. GATAGCGCGGAAATTGCCGAGGTTATAGCTAA 218464 29 100.0 32 ............................. ACCTGATCGAATGGATTCGACTTTATAGGGAT 218403 29 100.0 32 ............................. GCACCGGCCACTAACACCCCATCAGCCAGGAT 218342 29 100.0 32 ............................. ACGGGGGGCAGCTTGCCGCAACTGGCAAAAAT 218281 29 96.6 32 ........G.................... AATTTTAACAAACGAACACTACGCAATATTAT 218220 29 100.0 32 ............................. TGTCGTATTGACGAATAAAAATGATATCTTTT 218159 29 100.0 32 ............................. GTTCCGTGATAGCAGCACTGGCATTATCAGGC 218098 29 100.0 32 ............................. ATCATTCGCTCATTTTTGAAGTGGACCGGTAG 218037 29 100.0 32 ............................. ATCGTTTTTTTCGCTACGTCGCACAAATGGCC 217976 29 100.0 32 ............................. GGGGGCGGCGGGCGCCGTGGGGGCAGCTATCG 217915 29 100.0 33 ............................. GGATAGGGATCGGTAACTTTGCCATCGATCGGC 217853 29 100.0 32 ............................. TGAAATCCATCCGCTACGAACCTGAAGAAAAA 217792 29 100.0 32 ............................. CCGAGTTCGCGCAGTGTTTCTGTGCAGGTATT 217731 29 100.0 32 ............................. ACCGCAATAAAAATTTACACCGCCACACCGGC 217670 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 217609 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 217548 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 217487 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 217426 29 96.6 0 A............................ | A [217399] ========== ====== ====== ====== ============================= ================================= ================== 30 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCGAACGAATTGAGACTATTAGAGATTATTCGCC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTATCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGGTTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAATCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [51.7-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1136-9 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPMA01000004.1 Salmonella enterica subsp. enterica serovar Takoradi strain CFSAN059889 CFSAN059889_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1135 29 100.0 32 ............................. GTCGTTTTATGTTTTGAGCCATCGTTACACTT 1074 29 100.0 32 ............................. ATCCCCGGCGATAACGGGCGCGTAGTCAGCAA 1013 29 100.0 32 ............................. ACCAGGCGGTAGCGCTGAAGAACGCCGCTGAT 952 29 100.0 32 ............................. ACCCGTATCCGAGGCCAACGCGGCTACGAAAA 891 29 100.0 32 ............................. AATCATTTTCATAACTAATCTCCTTAGGTGTT 830 29 100.0 32 ............................. ACGATTACCACGAATTTCAGTTTCGTGTGGGG 769 29 100.0 32 ............................. GTAATCGCAACCAGAGCGAAAGCTCCATCGCA 708 29 100.0 32 ............................. CAGACGAGGAACGCCTCACTGCATCCGTTGGA 647 29 100.0 32 ............................. CCGCTCAACTCTTGCCGCATATCGTTGAGCTG 586 29 100.0 32 ............................. GGTAACTCGCAATATAGGTGGCGCCTCGCCCA 525 29 100.0 32 ............................. GATGATCTGGTGGCCCTCCCTCAGCGATGGCA 464 29 100.0 32 ............................. GGGGGCGGCGGGCGCCGTGGGGGCAGCTATCG 403 29 100.0 32 ............................. GATGATCTGGTGGCCCTCCCTCAGCGATGGCA 342 29 96.6 32 ....G........................ GGGGGCGGCGGGCGCCGTGGGGGCAGCTATCG 281 29 100.0 32 ............................. CAGCCGAGTAACGCCTCACTGCATCCGTTGGA 220 29 96.6 32 ...G......................... CCGCTCAACTCTTGCCGCATATCGTTGAGCTG 159 29 100.0 32 ............................. CAGACGAGTAACGCCTCACTTCTTCAGTGGGA 98 29 100.0 32 ............................. CCGCTCAACTCTTGCCGCATATCGTTGAGCTG 37 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGATTGTGGTCACAGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TGGTAACTC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [6.7-71.7]%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 18006-17307 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPMA01000004.1 Salmonella enterica subsp. enterica serovar Takoradi strain CFSAN059889 CFSAN059889_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 18005 29 100.0 32 ............................. CGCCGTCGTGCGTGAAAATCGGGTTAATGGGG 17944 29 100.0 32 ............................. TTACTGTCAGCCAGGTTACGCAGTTGCGCTAA 17883 29 100.0 32 ............................. TGAGTGCAACATTCATTGTTTCCTCGGTCAGG 17822 29 100.0 32 ............................. ATCAGTCAGGGGAAACAAATTGGGGAGTCATA 17761 29 100.0 32 ............................. CGTTAGCGGTTGAGCGTGACACCCTGGCGGCG 17700 29 100.0 32 ............................. TAAATGATATTGATGTAATGACGCGACTTTGC 17639 29 100.0 32 ............................. AACAAACTAATGTTTGTTTTTACCAGGTCGTT 17578 29 100.0 32 ............................. GTCGGGTTGCGATATATCCCGCTTTCTGGCCG 17517 29 100.0 32 ............................. CCATAAGAGCATCCCCGCCATCCGGAGGGGAA 17456 29 96.6 32 ...........................T. AAAAAAATGCGATCGGTACTCAACCCGGCCAC 17395 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 17334 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 12 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCACTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [6-0] 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], //