Array 1 98051-100501 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATND010000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 2538 NODE_3_length_358709_cov_89.4678, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 98051 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98112 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98173 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98234 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98295 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98356 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98417 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98478 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98539 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98600 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98661 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98722 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98783 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98844 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98905 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98966 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 99027 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 99088 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99149 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99210 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99271 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99332 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99393 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99454 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99515 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99577 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99638 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99699 29 100.0 19 ............................. TTTGACCCGAAGGCGAAAT Deletion [99747] 99747 29 96.6 26 A............................ CGCTATGTGAAGTTGCCCATTACGCA 99802 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99863 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99924 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99986 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 100047 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 100108 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 100169 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 100230 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 100291 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 100352 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 100413 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 100474 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 41 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:-0.02, 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 116634-117438 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAATND010000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 2538 NODE_3_length_358709_cov_89.4678, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 116634 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116695 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116756 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116817 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116878 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116940 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 117001 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [117043] 117043 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117104 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117165 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117226 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117287 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117348 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117409 29 96.6 0 A............................ | A [117435] ========== ====== ====== ====== ============================= ================================= ================== 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], //