Array 1 347265-348695 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTOP01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H41 isolate H41, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 347265 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 347326 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 347387 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 347448 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 347509 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 347570 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 347631 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 347692 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 347753 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 347814 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 347875 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 347936 29 100.0 32 ............................. CAGGCATCAGCGCCGATCCGTTCATAGTGCCC 347997 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 348058 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 348119 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 348180 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 348241 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 348302 29 100.0 32 ............................. TGAGGCTGGTCTATACCGGCAACGAACGCGAC 348363 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 348424 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 348485 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 348546 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 348607 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 348668 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 24 29 98.7 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 [0-8] 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 364828-365406 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTOP01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H41 isolate H41, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 364828 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 364889 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 364950 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 365011 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 365072 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 365133 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 365194 29 100.0 32 ............................. TGAGGAGGTGCGAGCGATGGTATCAAGGCCTA 365255 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 365316 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 365377 29 96.6 0 A............................ | A [365403] ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [0-3] 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], //