Array 1 74398-73392 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIY01000010.1 Salmonella enterica subsp. enterica serovar Kentucky strain BCW_2040 NODE_10_length_74432_cov_6.4967, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 74397 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 74336 29 100.0 32 ............................. GGCGACGGCACAAAACGCTCAAAACTCATAAC 74275 29 100.0 32 ............................. TGTTGGCTGGTAACCACCGCAGATCGTCACCT 74214 29 100.0 32 ............................. ACCAGGGGGTTTTTTCCACGTATCGCCGCTGC 74153 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 74092 29 100.0 32 ............................. CCCTTTATCTTAGCCGCCAGAACCAGAACGCC 74031 29 100.0 32 ............................. GCCCCGATAGCGTCAACTACCAGGGCCTGCAA 73970 29 100.0 32 ............................. AATTCTTTTGCTTGCGCGTCGTTCATATCGAA 73909 29 100.0 32 ............................. GACAATCAGGGGGCGCTGGTTGACAGTATTAA 73848 29 100.0 32 ............................. TTAGTCAGGACGACTTTTACGGCTATGTAGGC 73787 29 100.0 32 ............................. CTATGAGCAACGATATCACCGCACTGGCGCAG 73726 29 100.0 32 ............................. CCGTAATGCTTTTATGTCCTCGCTTCGCTGCG 73665 29 96.6 32 ...................A......... GAGGTAAAACTAACTGGCCGCGTTGTCCGTCA 73604 29 100.0 32 ............................. TACGCCAGAGGAATGGCTTTCAGTGTTTTGGT 73543 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 73482 29 100.0 32 ............................. TGATATTTTTGGTTATTTGCGATTTAGTTTTT 73421 29 100.0 0 ............................. | A [73394] ========== ====== ====== ====== ============================= ================================ ================== 17 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCTCTTCCGATCTGTTTCTGGCCGAACTGGAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCTCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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: F [50.0-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 11600-12299 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIY01000113.1 Salmonella enterica subsp. enterica serovar Kentucky strain BCW_2040 NODE_113_length_12316_cov_5.77075, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 11600 29 100.0 32 ............................. TTTTTTATAAATCTGGCGAACCTGCACCCCCT 11661 29 100.0 32 ............................. CTCTCAGCCCCTCCGGGGCGCCCCGTGATAAT 11722 29 100.0 32 ............................. GCATTGATGTAACACTCCTTAACTGCGGCGGC 11783 29 100.0 32 ............................. CGGTCTGTAGTCGCATGGCACGTCCTTCGGGG 11844 29 100.0 32 ............................. CATCCCCCCTCTTTTCCCCGGGTGTTTGTTGG 11905 29 100.0 32 ............................. ACGGTAGGAATATTCACGTTTTTTAAATCGGA 11966 29 100.0 32 ............................. ACCATGCATTGAAATGCCAGATGAAAATTGGG 12027 29 100.0 32 ............................. CTGCGGGTATCAAAGCGTTCAACGTTCTTGTC 12088 29 100.0 32 ............................. TTTCTGACTTTTGAGGGGGATATTTAGACGGG 12149 29 100.0 32 ............................. CCGCCTTCACCCAGCCCGCCGGACATCTGATC 12210 29 100.0 32 ............................. AGGGCTGGCTGACGCGCACCGAGCGCCGCAAC 12271 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 12 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : AAATTTATAGATCGGAA # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-21.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 49-260 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIY01000240.1 Salmonella enterica subsp. enterica serovar Kentucky strain BCW_2040 NODE_240_length_307_cov_4.60246, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 49 29 100.0 32 ............................. AAAAAACAATGGTTTTACCGTCCGGCTGAACA 110 29 100.0 32 ............................. CCGATGATCCAGAAAGTCACAAATGCGAGGAG 171 29 100.0 32 ............................. AGGGGTTCAGGGGCGAGCGGGCGTTAAAGCGC 232 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCGATCTATAAACCGGTGCCGCTGATTTTCGTAACGCCTCAATGTATG # Right flank : CAGACCAGGGAGTTTCTGGCCGAACTGGAGAGGTGTTCCCCGCTGGC # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [43.3-28.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 41-191 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIY01000264.1 Salmonella enterica subsp. enterica serovar Kentucky strain BCW_2040 NODE_264_length_225_cov_1.90741, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 41 29 100.0 32 ............................. AGGAGTTGTTAGGCCAACTGTATAACGATTTA 102 29 100.0 32 ............................. AGATGACCATCCCACCAAGCAGGCGAAGAAAA 163 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATAAACCGAAATTTATGAGGAAAATTATGTCAGACAGTAAG # Right flank : GTGCCGCTGATTTTCGTAACAAATTTCGGTTTAT # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 [7,4] 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 [-14.90,-14.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [46.7-33.3]%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], // Array 1 21696-23555 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIY01000074.1 Salmonella enterica subsp. enterica serovar Kentucky strain BCW_2040 NODE_74_length_23587_cov_5.16149, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 21696 29 100.0 32 ............................. AGAAAGATGCGTACGTTCAATGTCGAGCTTTT 21757 29 100.0 32 ............................. ACTGGCTAATCACGGTTAACGCCGTGCCGGTG 21818 29 100.0 32 ............................. CGGCCGGACTGATTTAACGAGGGGAATTTATG 21879 29 100.0 33 ............................. TTTTATCGTCGTAGCCTATTGCTAACTTGACGC 21941 29 100.0 32 ............................. CCTTTCGTGTCGTCTGCCTCGCTGGTTACCGT 22002 29 100.0 32 ............................. CCTCGCATAAACGAGGCTCGCTCTGAATCTGG 22063 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 22124 29 100.0 32 ............................. TAATCTTTCAGCGCGTCCTGGCGGTCAACGAG 22185 29 100.0 32 ............................. TTGAGTGCCACGGCCAGAGCGGTAGCCATTAA 22246 29 100.0 32 ............................. TCTCGCAAACATCCTTCAGGCAAAACCACGGT 22307 29 100.0 32 ............................. AAAACGGGTTTGCGGAAGGCTGGAACGCCTGC 22368 29 100.0 32 ............................. GAGCGGATCCGGGATCGTCAGCACTCTGAACC 22429 29 100.0 32 ............................. CACGATTTTATGTGCCGCGTCGAGGCGTGGGC 22490 29 100.0 32 ............................. GCGACCAAACCATTCGGATTCCGTAGGGGACC 22551 29 100.0 32 ............................. ATTTCTTGCCTATAATTTCCGGTTCGACGCCA 22612 29 100.0 32 ............................. CACAGATCGCGAGTTTGCTGGGTATATCTGAA 22673 29 100.0 32 ............................. GGGAATGGCTGGATCTGGTGTTGGTTATTTGC 22734 29 100.0 32 ............................. CCGCCGCTGTTCTTCTGTGTCTGCTTTTGTCC 22795 29 96.6 32 ...C......................... GCAGTAATCCCGGGTATTCCGAGTTATATGAA 22856 29 100.0 32 ............................. GCGTCAACCAGTTCTGGCATACCCTCCTCTTC 22917 29 100.0 32 ............................. ATTAGCTGATAAATCATCCAACATGTCACTTA 22978 29 100.0 32 ............................. AGTCGCTGGCGGATGTGCGGCGCACCGAAGCC 23039 29 96.6 32 ..G.......................... CACATAACCCGGCGCGATGGCCGATACATCAT 23100 29 96.6 32 ..G.......................... CGAGAGATCATAGACCAATGGACTGAAAGACT 23161 29 96.6 32 ..G.......................... TTGCGCTGTTCTATTGGCGGCAATTCTCTGAA 23222 29 96.6 32 ..G.......................... AGTACGAGGCACTATTCGGCAAGAAACCGCAC 23283 29 96.6 32 ..G.......................... GGGGCATGTGCGAAATTTCGCTCCAGTTTGTT 23344 29 93.1 32 ..G.....................C.... GCTCAAAACTCGGATGGTATAGGCGTGGCGCA 23405 29 96.6 32 ..G.......................... GCAAGCCACAGCGCAAAAGAGGTCTATTCCTG 23466 29 96.6 32 ..G.......................... GCGCTTCCGCCAACTCTCATCCGTGAAACGGT 23527 29 96.6 0 ..G.......................... | ========== ====== ====== ====== ============================= ================================= ================== 31 29 98.8 32 GTATTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGACATACGTTTAGT # Right flank : CGCCATAAACGCGACTCCGTCACACATCCGTA # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 : 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-23.3]%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], // Array 1 28-421 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXIY01000148.1 Salmonella enterica subsp. enterica serovar Kentucky strain BCW_2040 NODE_148_length_6395_cov_4.61671, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28 29 100.0 32 ............................. ACGCGTTAAAACTGCGCTCAATGCAGACGGCC 89 29 96.6 32 ...........A................. CGGTTCGCCCGCTGCTCAGTCTCGCCGGAATG 150 29 100.0 32 ............................. GGGCATGAGTGCTACTGCTTTCAACCCGAAAG 211 29 100.0 32 ............................. ATAAATTATCGGGAAATCATAATCAGCGCCGC 272 29 100.0 32 ............................. AAAACCCTCAAATATGCGTAACGGGAGGCTGG 333 29 100.0 32 ............................. TGCGCCAACGACTGGAATTTTTGCGTGTAGCC 394 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTATGATTTCCCGATAATTTATCCGTAG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGAGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [31.7-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //