Array 1 98105-100268 **** Predicted by CRISPRDetect 2.4 *** >NZ_MBOQ01000034.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STy2299_1 contig4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98105 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98166 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98227 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98288 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98349 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98410 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98471 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98532 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98593 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98654 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98715 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98776 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98837 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98898 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98959 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 99020 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 99081 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 99142 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 99203 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 99264 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99325 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99386 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99447 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99508 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99569 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99630 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99691 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99753 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99814 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99875 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99936 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99997 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 100058 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 100119 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 100180 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 100241 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-12] 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 116401-117205 **** Predicted by CRISPRDetect 2.4 *** >NZ_MBOQ01000034.1 Salmonella enterica subsp. enterica serovar Typhimurium strain STy2299_1 contig4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 116401 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116462 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116523 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116584 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116645 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116707 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 116768 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [116810] 116810 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 116871 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 116932 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 116993 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117054 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117115 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117176 29 96.6 0 A............................ | A [117202] ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.11, 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], //