Array 1 10386-12366 **** Predicted by CRISPRDetect 2.4 *** >NZ_LSZD01000181.1 Salmonella enterica subsp. enterica strain SE163A S1_S1_L001_R1_001_(paired)_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 10386 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 10447 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 10508 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 10569 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 10630 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 10691 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 10752 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 10813 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 10874 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 10935 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 10996 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 11057 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 11118 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 11179 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 11240 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 11301 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 11362 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 11423 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 11484 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 11545 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 11606 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 11667 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 11728 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 11789 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 11851 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 11912 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 11973 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 12034 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 12095 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 12156 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 12217 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 12278 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 12339 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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 28499-29303 **** Predicted by CRISPRDetect 2.4 *** >NZ_LSZD01000181.1 Salmonella enterica subsp. enterica strain SE163A S1_S1_L001_R1_001_(paired)_contig_3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 28499 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 28560 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 28621 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 28682 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 28743 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 28805 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 28866 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [28908] 28908 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 28969 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 29030 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 29091 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 29152 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 29213 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 29274 29 96.6 0 A............................ | A [29300] ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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: 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], //