Array 1 96148-97640 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUP01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N30655 N30655_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 96148 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 96209 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 96270 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 96331 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 96392 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 96453 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 96514 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 96575 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 96636 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 96697 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 96758 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 96819 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 96880 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 96941 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 97002 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 97063 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 97125 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 97186 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 97247 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 97308 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 97369 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 97430 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 97491 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 97552 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 97613 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 113773-115554 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUP01000009.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N30655 N30655_contig_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 113773 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 113834 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 113895 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 113956 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 114017 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 114079 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 114140 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 114201 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 114262 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 114323 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 114384 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 114445 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 114506 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 114567 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 114628 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 114689 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 114750 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 114811 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 114873 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 114934 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [114976] 114976 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 115037 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 115098 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 115159 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 115220 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 115281 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 115342 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 115403 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 115464 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 115525 29 96.6 0 A............................ | A [115551] ========== ====== ====== ====== ============================= ================================= ================== 30 29 98.5 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.04, 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 [0-13] 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], //