Array 1 61270-60002 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJV01000009.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N47729 N47729_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 61269 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 61208 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 61147 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 61086 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 61025 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 60964 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 60903 29 100.0 32 ............................. CCTGTAAAACTGATTTCAGGCTGGTTAGTGAC 60842 29 100.0 32 ............................. TAACGCCCGGCGGTATAGTCGATTTCGTGCTG 60781 29 100.0 32 ............................. ATTTATCCATTAGTCCCATAGCTGAGTCTCTT 60720 29 100.0 32 ............................. TCAACGTTACGACCGAACCACACCGATAAGAA 60659 29 100.0 32 ............................. GCACGGGTACGCCGAAAATCGGGGGCTATGCC 60598 29 100.0 32 ............................. GGGATCGGCGAGTCGTTCGTGTTTGCTATTTC 60537 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 60476 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 60397 29 100.0 32 ............................. GCGCGCAACCCGGCATTTCACAGAAAATTTTT 60336 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 60275 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 60214 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 60153 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 60092 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 60031 29 96.6 0 ............T................ | A [60004] ========== ====== ====== ====== ============================= ================================================== ================== 21 29 99.7 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTAGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:-0.00, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 1 475011-476137 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJV01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N47729 N47729_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 475011 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 475072 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 475133 29 100.0 32 ............................. GACGCTTACATCTCACCGAGAGATTTTGAGGC 475194 29 100.0 32 ............................. CGGGGATTAGCTCTAAAAATATTTTTATTTTG 475255 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 475316 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 475377 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 475438 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 475499 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 475560 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 475621 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 475682 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 475743 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 475804 29 93.1 32 A...........T................ ACGGGTTAGCGCCTGCGGATAATGCCCAGCAC 475865 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 475926 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 475987 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 476048 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 476109 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GCAACAGTGCTGGTGGAATTAAAAACACCGACGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [-10.50,-8.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-41.7]%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], //