Array 1 475651-476837 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIEA01000001.1 Salmonella enterica subsp. enterica serovar Kentucky strain 3341 2017-SEQ-0265_1_length_717070_cov_76.3024, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 475651 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 475712 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 475773 29 100.0 32 ............................. GACGCTTACATCTCACCGAGAGATTTTGAGGC 475834 29 100.0 32 ............................. CGGGGATTAGCTCTAAAAATATTTTTATTTTG 475895 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 475956 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 476017 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 476078 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 476139 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 476200 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 476261 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 476322 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 476383 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 476444 29 93.1 32 A...........T................ ACGGGTTAGCGCCTGCGGATAATGCCCAGCAC 476505 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 476566 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 476627 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 476688 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 476749 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 476810 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 492998-493899 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIEA01000001.1 Salmonella enterica subsp. enterica serovar Kentucky strain 3341 2017-SEQ-0265_1_length_717070_cov_76.3024, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 492998 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 493059 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 493120 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 493181 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 493242 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 493303 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 493364 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 493425 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 493504 29 100.0 32 ............................. GCGCGCAACCCGGCATTTCACAGAAAATTTTT 493565 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 493626 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 493687 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 493748 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 493809 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 493870 29 96.6 0 ............T................ | A [493897] ========== ====== ====== ====== ============================= ================================================== ================== 15 29 99.5 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTAGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-3] 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], //