Array 1 470784-471970 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDH01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain 3338 2017-SEQ-0263_2_length_713189_cov_81.5497, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 470784 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 470845 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 470906 29 100.0 32 ............................. GACGCTTACATCTCACCGAGAGATTTTGAGGC 470967 29 100.0 32 ............................. CGGGGATTAGCTCTAAAAATATTTTTATTTTG 471028 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 471089 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 471150 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 471211 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 471272 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 471333 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 471394 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 471455 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 471516 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 471577 29 93.1 32 A...........T................ ACGGGTTAGCGCCTGCGGATAATGCCCAGCAC 471638 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 471699 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 471760 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 471821 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 471882 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 471943 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 488131-489276 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDH01000002.1 Salmonella enterica subsp. enterica serovar Kentucky strain 3338 2017-SEQ-0263_2_length_713189_cov_81.5497, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 488131 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 488192 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 488253 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 488314 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 488375 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 488436 29 100.0 32 ............................. CCTGTAAAACTGATTTCAGGCTGGTTAGTGAC 488497 29 100.0 32 ............................. TAACGCCCGGCGGTATAGTCGATTTCGTGCTG 488558 29 100.0 32 ............................. ATTTATCCATTAGTCCCATAGCTGAGTCTCTT 488619 29 100.0 32 ............................. TCAACGTTACGACCGAACCACACCGATAAGAA 488680 29 100.0 32 ............................. GCACGGGTACGCCGAAAATCGGGGGCTATGCC 488741 29 100.0 32 ............................. GGGATCGGCGAGTCGTTCGTGTTTGCTATTTC 488802 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 488863 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 488942 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 489003 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 489064 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 489125 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 489186 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 489247 29 96.6 0 ............T................ | A [489274] ========== ====== ====== ====== ============================= ================================================== ================== 19 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTAGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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], //