Array 1 215134-213152 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBT010000043.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_1_17 NODE_44_length_749710_cov_20.381897, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 215133 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 215072 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 215011 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 214950 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 214889 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 214828 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 214767 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 214706 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 214645 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 214584 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 214523 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 214462 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 214401 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 214340 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 214279 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 214218 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 214157 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 214096 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 214035 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 213974 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 213913 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 213852 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 213791 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 213730 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 213669 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 213608 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 213547 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 213486 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 213425 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 213364 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 213303 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 213242 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 213181 29 100.0 0 ............................. | A [213154] ========== ====== ====== ====== ============================= ================================ ================== 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 234869-232766 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBT010000043.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_1_17 NODE_44_length_749710_cov_20.381897, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 234868 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 234807 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 234746 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 234685 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 234623 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 234562 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 234501 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 234440 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 234379 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 234318 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 234257 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 234196 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 234135 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 234074 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 234013 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 233952 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 233891 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 233830 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 233769 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 233708 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 233647 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 233586 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 233525 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 233464 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 233403 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 233342 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 233281 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 233220 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 233159 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 233098 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 233037 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 232976 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 232915 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 232854 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 232793 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], //