Array 1 98131-100172 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQPX01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 1003 NODE_5_length_223245_cov_23.3712, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98131 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98192 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98253 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98314 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98375 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98436 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98497 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98558 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98619 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98680 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98741 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98802 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98863 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98924 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98985 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 99046 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 99107 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 99168 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99229 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99290 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99351 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99412 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99473 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99534 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99595 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99657 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99718 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99779 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99840 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99901 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99962 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 100023 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 100084 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 100145 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 34 29 98.6 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 [0-14] 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 116305-117109 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQPX01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 1003 NODE_5_length_223245_cov_23.3712, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116305 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116366 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116427 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116488 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116549 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116611 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 116714 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 116775 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 116836 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 116897 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 116958 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117019 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117080 29 96.6 0 A............................ | A [117106] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //