Array 1 220060-221430 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEQ01000013.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N43823 N43823_contig_13, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 220060 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 220121 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 220182 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 220243 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 220304 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 220365 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 220426 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 220487 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 220548 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 220609 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 220670 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 220731 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 220792 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 220853 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 220915 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 220976 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 221037 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 221098 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 221159 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 221220 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 221281 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 221342 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 221403 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 1 1063-1274 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEQ01000087.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N43823 N43823_contig_87, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1063 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 1124 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 1185 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 1246 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 107893-106355 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEQ01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N43823 N43823_contig_9, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107892 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 107830 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 107769 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 107708 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 107647 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 107586 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 107525 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 107464 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 107403 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 107342 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 107281 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 107220 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107159 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107098 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 107036 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106933 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106872 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106811 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106750 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106689 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106628 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106567 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106506 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106445 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106384 29 96.6 0 A............................ | A [106357] ========== ====== ====== ====== ============================= ========================================================================== ================== 25 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAGCGGGGATAAACCGAAAATGCAGGTGGGGTAACGAATGCGAGATT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.10, 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 [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //