Array 1 275551-274746 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDV01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3162 2017-SEQ-0214_2_length_391950_cov_80.4015, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 275550 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 275489 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 275428 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 275367 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 275306 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 275244 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 275141 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 275080 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 275019 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 274958 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 274897 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 274836 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 274775 29 96.6 0 A............................ | A [274748] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 293847-291683 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDV01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3162 2017-SEQ-0214_2_length_391950_cov_80.4015, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 293846 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 293785 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 293724 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 293663 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 293602 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 293541 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 293480 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 293419 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 293358 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 293297 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 293236 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 293175 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 293114 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 293053 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 292992 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 292931 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 292870 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 292809 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 292748 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 292687 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 292626 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 292565 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 292504 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 292443 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 292382 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 292321 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 292260 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 292198 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 292137 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 292076 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 292015 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 291954 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 291893 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 291832 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 291771 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 291710 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 36 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [12-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //