Array 1 218957-220510 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAAU01000063.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R9_0042_R1 NODE_2_length_344473_cov_1.07542_ID_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218957 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 219018 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 219079 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 219140 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 219201 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 219262 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 219323 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 219384 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 219445 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 219506 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 219567 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 219628 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 219689 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 219750 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 219811 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 219872 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 219933 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 219995 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 220056 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 220117 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 220178 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 220239 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 220300 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 220361 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 220422 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 220483 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 26 29 98.3 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 236643-238119 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAAU01000063.1 Salmonella enterica subsp. enterica serovar Typhimurium strain R9_0042_R1 NODE_2_length_344473_cov_1.07542_ID_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236643 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 236704 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 236766 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 236827 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 236888 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 236949 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 237010 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 237071 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 237132 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 237193 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 237254 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 237315 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 237376 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 237438 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 237499 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [237541] 237541 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 237602 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 237663 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 237724 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 237785 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 237846 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 237907 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 237968 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 238029 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 238090 29 96.6 0 A............................ | A [238116] ========== ====== ====== ====== ============================= ================================= ================== 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], //