Array 1 475281-476467 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDL01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N43447 N43447_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 475281 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 475342 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 475403 29 100.0 32 ............................. GACGCTTACATCTCACCGAGAGATTTTGAGGC 475464 29 100.0 32 ............................. CGGGGATTAGCTCTAAAAATATTTTTATTTTG 475525 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 475586 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 475647 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 475708 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 475769 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 475830 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 475891 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 475952 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 476013 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 476074 29 93.1 32 A...........T................ ACGGGTTAGCGCCTGCGGATAATGCCCAGCAC 476135 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 476196 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 476257 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 476318 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 476379 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 476440 28 96.6 0 .......................-..... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: NA [68.3-63.3]%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 492628-493834 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDL01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N43447 N43447_contig_2, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 492628 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 492689 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 492750 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 492811 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 492872 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 492933 29 100.0 32 ............................. CCTGTAAAACTGATTTCAGGCTGGTTAGTGAC 492994 29 100.0 32 ............................. TAACGCCCGGCGGTATAGTCGATTTCGTGCTG 493055 29 100.0 32 ............................. ATTTATCCATTAGTCCCATAGCTGAGTCTCTT 493116 29 100.0 32 ............................. TCAACGTTACGACCGAACCACACCGATAAGAA 493177 29 100.0 32 ............................. GCACGGGTACGCCGAAAATCGGGGGCTATGCC 493238 29 100.0 32 ............................. GGGATCGGCGAGTCGTTCGTGTTTGCTATTTC 493299 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 493360 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 493439 29 100.0 32 ............................. GCGCGCAACCCGGCATTTCACAGAAAATTTTT 493500 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 493561 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 493622 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 493683 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 493744 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 493805 29 96.6 0 ............T................ | A [493832] ========== ====== ====== ====== ============================= ================================================== ================== 20 29 99.7 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTAGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //