Array 1 8865-10010 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYO01000089.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N40395 N40395_contig_89, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 8865 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 8926 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 8987 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 9048 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 9109 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 9170 29 100.0 32 ............................. CCTGTAAAACTGATTTCAGGCTGGTTAGTGAC 9231 29 100.0 32 ............................. TAACGCCCGGCGGTATAGTCGATTTCGTGCTG 9292 29 100.0 32 ............................. ATTTATCCATTAGTCCCATAGCTGAGTCTCTT 9353 29 100.0 32 ............................. TCAACGTTACGACCGAACCACACCGATAAGAA 9414 29 100.0 32 ............................. GCACGGGTACGCCGAAAATCGGGGGCTATGCC 9475 29 100.0 32 ............................. GGGATCGGCGAGTCGTTCGTGTTTGCTATTTC 9536 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 9597 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 9676 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 9737 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 9798 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 9859 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 9920 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 9981 29 96.6 0 ............T................ | A [10008] ========== ====== ====== ====== ============================= ================================================== ================== 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], // Array 1 201-50 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYO01000107.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N40395 N40395_contig_107, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 200 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 139 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 78 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GGACGCTTACATCTCACCGAGAGATTTTGAGGCGTGTTCCCCGCGCCAGC # 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: 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 [-14.00,-14.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 31-973 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYO01000103.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N40395 N40395_contig_103, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 31 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 92 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 153 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 214 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 275 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 336 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 397 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 458 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 519 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 580 29 93.1 32 A...........T................ ACGGGTTAGCGCCTGCGGATAATGCCCAGCAC 641 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 702 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 763 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 824 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 885 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 946 28 96.6 0 .......................-..... | ========== ====== ====== ====== ============================= ================================ ================== 16 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGGATTAGCTCTAAAAATATTTTTATTTTGG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [38.3-63.3]%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], //