Array 1 514814-516916 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBQ010000049.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_1_13 NODE_34_length_749675_cov_18.270731, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 514814 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 514875 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 514936 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 514997 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 515059 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 515120 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 515181 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 515242 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 515303 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 515364 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 515425 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 515486 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 515547 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 515608 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 515669 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 515730 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 515791 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 515852 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 515913 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 515974 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 516035 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 516096 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 516157 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 516218 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 516279 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 516340 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 516401 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 516462 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 516523 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 516584 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 516645 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 516706 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 516767 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 516828 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 516889 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 534549-536530 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBQ010000049.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_1_13 NODE_34_length_749675_cov_18.270731, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 534549 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 534610 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 534671 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 534732 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 534793 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 534854 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 534915 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 534976 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 535037 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 535098 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 535159 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 535220 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 535281 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 535342 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 535403 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 535464 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 535525 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 535586 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 535647 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 535708 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 535769 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 535830 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 535891 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 535952 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 536013 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 536074 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 536135 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 536196 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 536257 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 536318 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 536379 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 536440 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 536501 29 100.0 0 ............................. | A [536528] ========== ====== ====== ====== ============================= ================================ ================== 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], //