Array 1 514834-516936 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBS010000050.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_1_15 NODE_55_length_750248_cov_18.799349, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 514834 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 514895 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 514956 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 515017 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 515079 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 515140 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 515201 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 515262 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 515323 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 515384 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 515445 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 515506 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 515567 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 515628 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 515689 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 515750 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 515811 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 515872 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 515933 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 515994 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 516055 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 516116 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 516177 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 516238 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 516299 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 516360 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 516421 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 516482 29 96.6 32 ..G.......................... CGCCATAAACGCGACTCCGTCACACATCCGTA 516543 29 96.6 32 ..G.......................... ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 516604 29 93.1 32 ..G........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 516665 29 96.6 32 ..G.......................... GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 516726 29 96.6 32 ..G.......................... ATAAATTATCGGGAAATCATAATCAGCGCCGC 516787 29 96.6 32 ..G.......................... AAAACCCTCAAATATGCGTAACGGGAGGCTGG 516848 29 96.6 32 ..G.......................... TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 516909 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 534569-536550 **** Predicted by CRISPRDetect 2.4 *** >NZ_JACYBS010000050.1 Salmonella enterica subsp. enterica serovar Kentucky strain HUD_1_15 NODE_55_length_750248_cov_18.799349, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 534569 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 534630 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 534691 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 534752 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 534813 29 100.0 32 ............................. ACGTGACCGCCGAAATGATTGCGGAAATCGCC 534874 29 100.0 32 ............................. CGCGCCCACCGTTCAGCCCTGGAAAAAGCGGC 534935 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 534996 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 535057 29 100.0 32 ............................. AAATTTATGAGGAAAATTATGTCAGACAGTAA 535118 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 535179 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 535240 29 100.0 32 ............................. GTGCCGCTGATTTTCGTAACGCCTCAATGTAT 535301 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 535362 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 535423 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 535484 29 100.0 32 ............................. CAGACCAGGGAGTTTCTGGCCGAACTGGAGAG 535545 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 535606 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 535667 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 535728 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 535789 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 535850 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 535911 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 535972 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 536033 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 536094 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 536155 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 536216 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 536277 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 536338 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 536399 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 536460 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 536521 29 100.0 0 ............................. | A [536548] ========== ====== ====== ====== ============================= ================================ ================== 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], //