Array 1 5560-8029 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCXU02000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0049 NODE_8_length_214545_cov_28.962582, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5560 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 5621 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 5682 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 5743 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 5804 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 5865 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 5926 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 5987 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 6048 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 6109 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 6170 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 6231 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 6292 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 6353 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 6414 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 6475 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 6536 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 6597 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6658 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 6719 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 6780 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 6841 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 6902 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6963 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7024 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7086 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7147 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7208 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 7269 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7330 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7391 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7452 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7514 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7575 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7636 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7697 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7758 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7819 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7880 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7941 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 8002 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 41 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 [0-13] 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 24162-24966 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCXU02000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain HIY0049 NODE_8_length_214545_cov_28.962582, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 24162 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 24223 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 24284 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 24345 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 24406 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 24468 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 24571 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 24632 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 24693 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 24754 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 24815 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 24876 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 24937 29 96.6 0 A............................ | A [24963] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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], //