Array 1 21542-18156 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYUO01000146.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- str. CFSAN004345 NODE_27_length_38008_cov_16.635366, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 21541 29 100.0 32 ............................. CAGCTTTAGCATCGGTCGACAGCCCATCTGGC 21480 29 100.0 32 ............................. CGTCCTTTACATCCCAGACCACACTAACGTCG 21419 29 100.0 32 ............................. CACTCGCTGGAGCTGGTTGTCGCTATCAGCAA 21358 29 100.0 32 ............................. ATGAATCTGTAATTCGTTATAGCTCATCATTG 21297 29 100.0 32 ............................. ATACGCTCAACCTAGCTCTTACTCAACTACAT 21236 29 100.0 32 ............................. GGGCGGGTAACAGCGTGCTTGGTTCTGGTAAC 21175 29 100.0 32 ............................. AGAAAAACCGCTTTGTAATTACTGGTCATGTT 21114 29 100.0 32 ............................. CGTGTCAGCCAAGGTGCAACGCTACTACGCAC 21053 29 100.0 32 ............................. GAAGGTGTTTTTTATTCAAAAGATAGGATACC 20992 29 100.0 32 ............................. CCAGTTTCTAACGATATCGTCCACCAGCTTCG 20931 29 100.0 32 ............................. TATGACTAATGCACAGTTAAAACGGGTATGGG 20870 29 100.0 33 ............................. CAAAATGTGTTGTTATGATGGTAGCCTTCAGAC 20808 29 100.0 32 ............................. TGTTCCGATGCAGCGCTTACAACGATGGGGAG 20747 29 100.0 32 ............................. TCAGCGCCGGCGATCGGGCCGCCGATTTTGTC 20686 29 100.0 32 ............................. GGCATGTCGTGGTTCAGGATGAGAAAATCCCC 20625 29 100.0 32 ............................. ATATTCAGGAGCGTATCGTGGCCGAGATCGCA 20564 29 100.0 32 ............................. CGGCCCCGTATAAATCTCGTGGCGCACAAATG 20503 29 100.0 32 ............................. CTCGCGCATTGTCTTTTGATCCCATAGCGTAT 20442 29 100.0 32 ............................. CGCATTCAAATGCCGCGGCATGACCAGCAGCA 20381 29 100.0 32 ............................. AATTGGTGTGGCCTGGCTGAAATGTCGGGCGC 20320 29 100.0 32 ............................. ACCCCGCATAGTCCTTGTCGTATAAATATTGA 20259 29 100.0 32 ............................. GCGATCTTAAATTTGCCGCCGCGTAATTTTTG 20198 29 100.0 32 ............................. CGCCCACCCTGAGTATTATCACTACTCCGGAC 20137 29 100.0 33 ............................. CCAGCGAGCGCTGGCTTCAGGATGGGGTTAGGC 20075 29 100.0 32 ............................. GGGCCAATAAATGACGCTAAAACGCGCATATA 20014 29 100.0 32 ............................. CCCTGGTAGAACTTTATACGCAAGCGCTTATG 19953 29 100.0 32 ............................. TCTCTACACAGGAGCACAGGACATGAATAGCA 19892 29 100.0 32 ............................. TAGCCGTCATTACAGAATTAATTACACGTGAA 19831 29 100.0 32 ............................. CGATTGTCCAGATCACATAAATTTGTATAAAA 19770 29 100.0 32 ............................. CAAATGGATTAGTGATAGCCTCCTTTTATTAT 19709 29 100.0 32 ............................. CATTTTCTCGCACTCTGTCTTGGTCAGCTTCT 19648 29 100.0 32 ............................. CCCATTGAGCACATGCACGTTGCCGGGTTAAA 19587 29 100.0 32 ............................. CGGCCCGCGTTGGTTATGAAGAAAAGCACTAC 19526 29 100.0 32 ............................. CGCACGATTCCATCACCTAAAAACGACCACTT 19465 29 100.0 33 ............................. CAAAATTTTAACGGCCATGACCAGGCAGGGATT 19403 29 100.0 32 ............................. TTGTCGCGCCTGGTATGTGGTGAGATTTGCAA 19342 29 100.0 32 ............................. TTTGGAAACCATGCCTGATCGCCAATATCTGA 19281 29 100.0 32 ............................. ATTAAATATTCCGCGCGCATTCAGGTACCCGG 19220 29 100.0 32 ............................. GGGAATGCCCCATTTGCAAGCGTCGCGGAAAA 19159 29 100.0 32 ............................. CTTGTTTCTTCTAATCTCTTTTCGCGTTGGTA 19098 29 100.0 32 ............................. ACATAAACGCACGCGCGGGGATCCGAATTTTT 19037 29 100.0 32 ............................. GTGAACGCGCAGAATATAGATGGGGACATTAC 18976 29 100.0 32 ............................. CTGGTGGCCGCACTGTGTGCCGACGGGGAATT 18915 29 100.0 32 ............................. TATTTTTGCGGGATCAATGTCGGCTCGAGCAC 18854 29 100.0 32 ............................. TTCGCGCCAGATTTTAGCGAGGTGATACAGGT 18793 29 100.0 32 ............................. AGTTATTCCCGGTGTTGTCTGCGAAACAACAC 18732 29 100.0 32 ............................. ATCGCTTCCAGCCGTTCTTTCTCCTGCATCAG 18671 29 100.0 32 ............................. AGCGTCTTTCTGCTCTTTCTTGGAGGCTATTT 18610 29 100.0 32 ............................. CCGCTGGCGGTGAATACCATGCGGCGTATCGC 18549 29 100.0 32 ............................. CATGGATTTGCCCCAACTCATGGCGGCTGGCT 18488 29 100.0 32 ............................. CGTTCTTCCAGCACATCCTGCGGCTGCACGAC 18427 29 100.0 32 ............................. TCACGCGGGCCCCCTTATTGGGTCGGGCAGGT 18366 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 18305 29 100.0 32 ............................. CGCTGATATTGTTCGCGCAGATCGTCGTACTG 18244 29 93.1 32 .........................GT.. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 18183 28 82.8 0 A.....................-.C..GT | ========== ====== ====== ====== ============================= ================================= ================== 56 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCTAGATTAATGACCAGCAGCGTATTGTTCTTCTCAGCGTCACTCATTCGTT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [7-0] 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 1 2524-910 **** Predicted by CRISPRDetect 2.4 *** >NZ_AYUO01000038.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- str. CFSAN004345 NODE_139_length_2382_cov_22.330814, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 2523 29 100.0 32 ............................. CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 2462 29 100.0 32 ............................. TAATTTGCGGAGTTCGCGTAACTCACACAATG 2401 29 100.0 32 ............................. ATCAATATTAAACTCATGACCATGAGCAGTCG 2340 29 100.0 32 ............................. AGCTGTCGCCTGGCGAGTGCTCGACGCTCAAT 2279 29 100.0 32 ............................. GCTAAATGAGTATTACGGCACGTCTTACGGTT 2218 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 2157 29 96.6 32 ............................T GAGCCAGACTGAATTTTATGAAGAAATAGGTA 2096 29 100.0 32 ............................. GATTTTCGATAACGCCGCTTCAGCTCACTGGT 2035 29 100.0 32 ............................. AGCAAAAAACGTGGCCGCACGAACGCGGCCAG 1974 29 100.0 32 ............................. TTTGGTGATGCGATCGCCCCTTGTTCAATGAT 1913 29 100.0 32 ............................. CGCTGTGCGGTAATTACCTTTGAATTACGCAT 1852 29 100.0 32 ............................. CCAACGGTTTCCGTTGGCTTTTCACCTTCAGC 1791 29 100.0 32 ............................. CGCCCCTACAATACATCCTGATACAACAACCG 1730 29 100.0 32 ............................. TTCTGGCGGCAGAGATAGTTAAAATAGTTGCA 1669 29 96.6 32 ............................A AAAAACGGGCGCTGCGGGTCATTTTCGAAAGC 1608 29 96.6 32 ............................T GACTCATACTCGTCTGCGCCCTGCGCGCAAAA 1547 29 100.0 32 ............................. GCTAATTTATAAATCAAGTTAAAGCTTGATTA 1486 29 100.0 32 ............................. GCGTATGAGGGCGCGCAACAGGCGATGCGTGA 1425 29 100.0 32 ............................. TCTACGGGCGCACAGCGAAAACTACCGAGGAG 1364 29 100.0 32 ............................. GGCGGCAATATCCATCACTCAGCACCAGGGAA 1303 29 100.0 32 ............................. ATTTAATTGCGTCATAATATTAATTCCTGTAT 1242 29 100.0 32 ............................. GGTGAGAACAGGGTGCATGGGAGGGAATAATT 1181 29 96.6 32 .....T....................... CGTTACAGCCAGTTCATGGAAAGTTTCAGGCA 1120 29 100.0 32 ............................. ATCCCAAAACATCTTTCCCTGGTTCCTCTCAG 1059 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 998 29 96.6 32 ............T................ TACCAACAATTCCGCGTTACGCCAACGGTAAC 937 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGCTACCCCGCCATTACGGCGGGTTTCTTACAG # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGATGACCCGTCCTGAATAGCGTTGACACGTTCCAGACTTAAATCCGGAGAACGTGATGATGACTGAGTTCAAACGCACCCAACGCGATTATCCTCTATCCTTTAAAATAGCCGTCGTTGAGCAGGTCGAAAAAGGCGAGATGACCTATAAACAGGCCCAGCAGCGATATGGCATTCAGGGGCGCTCCACCGTACTTGTCTGGCTGCGTAAATATGGCCGGCTTGACTGGAGACCCGGACTTCCTGACCTGGTGAAGAGGAAACTGCCTGTGGCTCAGACAACTATCCCGCTGACACCCGAGCAAAGAATCAGGGAACTTGAAGAACAGCTTGAGCTGGCAAACCAGAAAGCTGAGTTTTTTGAGTGCGTTATCAACGTCCTGAAAAATGATTACGGGGTAAGTGTTGTA # 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 : 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-21.7]%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], //