Array 1 690053-691790 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXMG01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium strain NVSL 7095 NODE_1_length_691817_cov_0.41267, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================================================================================================== ================== 690053 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 690114 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 690175 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 690236 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 690297 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 690358 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 690419 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 690480 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 690541 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 690602 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 690663 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 690724 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 690785 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 690846 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 690907 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 690968 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 691029 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 691090 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 691151 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 691212 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 691273 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 691334 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 691395 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 691456 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 691518 29 96.6 154 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTAGTGTTCCCCGTGCCAGCGGGGATAAACCGTCATTTCTGGACGGGGCTGTGTGACGAATACGGTGTTCCCCGCGCCAGCGGGGATAAACCGTGTCCAATTAACCCAAACTTTGCGCGCTTAAT 691701 29 93.1 32 A............T............... GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 691762 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ========================================================================================================================================================== ================== 27 29 99.1 37 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GATCGGGTGGTGCCGGTATAAACAGTC # Questionable array : NO Score: 5.79 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:-0.41, 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-20.0]%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], // Array 1 107484-106679 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXMG01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain NVSL 7095 NODE_15_length_123964_cov_0.441626, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107483 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107422 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 107361 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107300 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 107239 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 107177 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 107074 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 107013 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106952 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106891 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106830 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106769 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106708 29 96.6 0 A............................ | A [106681] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 123949-123616 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXMG01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain NVSL 7095 NODE_15_length_123964_cov_0.441626, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 123948 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 123887 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 123826 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123765 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123704 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123643 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 6 29 95.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGCTGGCGCGCTTAA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.77, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [5-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-11.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //