Array 1 469875-471977 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNB010000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 1217 NODE_1_length_740262_cov_51.266, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 469875 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 469936 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 469997 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 470058 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 470119 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 470180 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 470241 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 470302 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 470363 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 470424 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 470485 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 470546 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 470607 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 470668 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 470729 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 470790 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 470851 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 470912 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 470973 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 471034 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 471095 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 471156 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 471217 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 471278 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 471339 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 471400 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 471462 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 471523 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 471584 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 471645 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 471706 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 471767 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 471828 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 471889 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 471950 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 35 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATTTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 488111-488812 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATNB010000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 1217 NODE_1_length_740262_cov_51.266, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 488111 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 488172 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 488234 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 488295 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 488356 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 488417 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 488478 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 488539 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 488600 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 488661 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 488722 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 488783 29 96.6 0 A............................ | A [488809] ========== ====== ====== ====== ============================= ================================= ================== 12 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-3] 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], //