Array 1 1-719 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDS01000011.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N43455 N43455_contig_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================================== ================== 1 29 100.0 32 ............................. ATTTATCCATTAGTCCCATAGCTGAGTCTCTT 62 29 100.0 32 ............................. TCAACGTTACGACCGAACCACACCGATAAGAA 123 29 100.0 32 ............................. GCACGGGTACGCCGAAAATCGGGGGCTATGCC 184 29 100.0 32 ............................. GGGATCGGCGAGTCGTTCGTGTTTGCTATTTC 245 29 100.0 32 ............................. GTCAACGCCAATGACCGGGAATTATCCCGGAA 306 29 100.0 50 ............................. TTTCCGCTCTCTCTCGTCCATCATTCCGCGCCGGCATAACTGACGATCAG 385 29 100.0 32 ............................. CTGGTCCCGCGTGTATACCAGTATTTACCGTG 446 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 507 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 568 29 96.6 32 ..........T.................. GCGTATGAGCGCCCAGCAGCGAACGTGAATCT 629 29 100.0 32 ............................. CCGCTTTGCTGGCAACATTCACCACATAGCAT 690 29 96.6 0 ............T................ | A [717] ========== ====== ====== ====== ============================= ================================================== ================== 12 29 99.4 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # 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: NA [0.0-0.0]%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 1 202-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDS01000087.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N43455 N43455_contig_87, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 201 29 100.0 32 ............................. CCAGTCTGTATGAGGCTGCGATTGTGTGTTTT 140 29 100.0 32 ............................. CCTGTAAAACTGATTTCAGGCTGGTTAGTGAC 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTAACGCCCGGCGGTATAGTCGATTTCGTGCTGGTGTTCCCCGCGCCAGCG # 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 [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [30.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 202-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDS01000015.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N43455 N43455_contig_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 201 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 140 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGTCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTAGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GACCGGGTTGCCGTAGGTGCTGGCCCCCTTGATGTGTTCCCCGCGCCAGCG # 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 [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [25.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17549-16362 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHDS01000015.1 Salmonella enterica subsp. enterica serovar Kentucky strain CVM N43455 N43455_contig_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17548 29 100.0 32 ............................. CGTGCAGGGGGTTAAATAAAGAACACGCTGAC 17487 29 100.0 32 ............................. CGCTTGGCGGTTATCATGGCCGGTAATGACTC 17426 29 100.0 32 ............................. GACGCTTACATCTCACCGAGAGATTTTGAGGC 17365 29 100.0 32 ............................. CGGGGATTAGCTCTAAAAATATTTTTATTTTG 17304 29 100.0 32 ............................. CAGTATTTCGGCATGGCAAGCCGCAGCGCGAA 17243 29 100.0 32 ............................. ATAATCGGGATACATTTTGTTGTCCGGGTGGC 17182 29 100.0 32 ............................. TCAGAGCCTTTTTGATGAAGTACTACGGCAAC 17121 29 100.0 32 ............................. GCGTACAGCCGTATGCCTCAGACTCCCCACGA 17060 29 100.0 32 ............................. GGCCGATATACAGTTTTTACTGTGGGATGCGC 16999 29 100.0 32 ............................. CGGAAATTCAGGGAACCCCGGAAGCGATTAGA 16938 29 100.0 32 ............................. CAGCAGGACGACGACCCGCGCCCCCGCGTCGG 16877 29 93.1 32 A...........T................ GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 16816 29 89.7 32 A...C.......T................ CGGACATTGTTCGTGAGCGAGCTGTTGTTCGT 16755 29 93.1 32 A...........T................ ACGGGTTAGCGCCTGCGGATAATGCCCAGCAC 16694 29 89.7 32 A...........T........G....... GTGGCAATGGTATCGCTATACGAAAGCGACGT 16633 29 96.6 32 .......T..................... TTCGTGTATTTTGAGTCGTTTACCGTATCTGC 16572 29 100.0 32 ............................. CGCGCCGCACGTTCGGTAGCGTGGCTGAGTTA 16511 29 100.0 32 ............................. TGGGACATTCTCGCTAGTCACGGTCATGTCAT 16450 29 100.0 32 ............................. GCAACAGTGCTGGTGGAATTAAAAACACCGAC 16389 28 96.6 0 .........................-... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [-8.90,-10.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-68.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //