Array 1 5418-6910 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCUG02000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0229 NODE_12_length_185496_cov_36.466049, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5418 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 5479 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 5540 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 5601 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 5662 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 5723 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 5784 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 5845 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 5906 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 5967 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6028 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6089 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 6150 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6211 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6272 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 6333 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6395 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 6456 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 6517 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6578 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6639 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 6700 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 6761 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 6822 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 6883 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 2 23043-24519 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCUG02000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0229 NODE_12_length_185496_cov_36.466049, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 23043 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 23104 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 23166 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 23227 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 23288 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 23349 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 23410 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 23471 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 23532 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 23593 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 23654 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 23715 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 23776 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 23838 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 23899 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [23941] 23941 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 24002 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 24063 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 24124 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 24185 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 24246 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 24307 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 24368 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 24429 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 24490 29 96.6 0 A............................ | A [24516] ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.06, 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 [1-3] 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], //