Array 1 229728-228251 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDT01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3333 2017-SEQ-0260_6_length_252798_cov_66.271, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 229727 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 229666 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 229604 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 229543 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 229482 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 229421 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 229360 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 229299 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 229238 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 229177 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 229116 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 229055 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 228994 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 228932 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 228829 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 228768 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 228707 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 228646 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 228585 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 228524 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 228463 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 228402 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 228341 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 228280 29 96.6 0 A............................ | A [228253] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: 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: 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 247475-245860 **** Predicted by CRISPRDetect 2.4 *** >NZ_SIDT01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 3333 2017-SEQ-0260_6_length_252798_cov_66.271, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 247474 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 247413 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 247352 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 247291 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 247230 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 247169 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 247108 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 247047 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 246986 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 246925 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 246864 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 246803 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 246742 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 246681 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 246620 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 246559 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 246498 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 246437 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 246375 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 246314 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 246253 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 246192 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 246131 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 246070 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 246009 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 245948 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 245887 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [10-1] 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], //