Array 1 317178-318365 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVGB01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033880 CFSAN033880_contig0002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 317178 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 317239 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 317300 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 317361 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 317422 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 317483 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 317544 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 317605 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 317666 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 317727 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 317788 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 317849 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 317910 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 317971 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 318032 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 318093 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 318155 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 318216 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 318277 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 318338 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-8] 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 334498-335669 **** Predicted by CRISPRDetect 2.4 *** >NZ_LVGB01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CFSAN033880 CFSAN033880_contig0002, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 334498 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 334559 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 334621 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 334682 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 334743 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 334804 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 334865 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 334926 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 334988 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 335049 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [335091] 335091 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 335152 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 335213 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 335274 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 335335 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 335396 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 335457 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 335518 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 335579 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 335640 29 96.6 0 A............................ | A [335666] ========== ====== ====== ====== ============================= ================================= ================== 20 29 97.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.07, 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], //