Array 1 214845-212863 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYCA010000025.1 Salmonella enterica subsp. enterica serovar Kentucky strain LSP_314_17 NODE_27_length_718421_cov_52.330769, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 214844 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 214783 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 214722 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 214661 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 214600 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 214539 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 214478 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 214417 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 214356 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 214295 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 214234 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 214173 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 214112 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 214051 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 213990 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 213929 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 213868 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 213807 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 213746 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 213685 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 213624 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 213563 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 213502 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 213441 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 213380 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 213319 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 213258 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 213197 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 213136 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 213075 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 213014 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 212953 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 212892 29 100.0 0 ............................. | A [212865] ========== ====== ====== ====== ============================= ================================ ================== 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 234580-232477 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYCA010000025.1 Salmonella enterica subsp. enterica serovar Kentucky strain LSP_314_17 NODE_27_length_718421_cov_52.330769, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 234579 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 234518 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 234457 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 234396 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 234334 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 234273 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 234212 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 234151 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 234090 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 234029 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 233968 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 233907 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 233846 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 233785 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 233724 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 233663 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 233602 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 233541 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 233480 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 233419 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 233358 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 233297 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 233236 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 233175 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 233114 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 233053 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 232992 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 232931 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 232870 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 232809 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 232748 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 232687 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 232626 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 232565 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 232504 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], //