Array 1 514875-516977 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBP010000010.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_2_09 NODE_29_length_749648_cov_29.389423, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 514875 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 514936 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 514997 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 515058 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 515120 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 515181 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 515242 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 515303 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 515364 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 515425 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 515486 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 515547 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 515608 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 515669 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 515730 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 515791 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 515852 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 515913 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 515974 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 516035 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 516096 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 516157 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 516218 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 516279 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 516340 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 516401 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 516462 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 516523 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 516584 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 516645 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 516706 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 516767 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 516828 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 516889 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 516950 28 79.3 0 ..G............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 97.7 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: F [6,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTATTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 534610-536591 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBP010000010.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_2_09 NODE_29_length_749648_cov_29.389423, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 534610 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 534671 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 534732 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 534793 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 534854 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 534915 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 534976 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 535037 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 535098 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 535159 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 535220 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 535281 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 535342 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 535403 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 535464 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 535525 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 535586 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 535647 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 535708 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 535769 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 535830 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 535891 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 535952 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 536013 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 536074 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 536135 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 536196 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 536257 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 536318 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 536379 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 536440 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 536501 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 536562 29 100.0 0 ............................. | A [536589] ========== ====== ====== ====== ============================= ================================ ================== 33 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //