Array 1 422422-423974 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGY01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH34 isolate CH34, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 422422 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 422483 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 422544 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 422605 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 422666 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 422727 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 422788 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 422849 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 422910 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 422971 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 423032 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 423093 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 423154 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 423215 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 423276 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 423337 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 423398 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 423459 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 423520 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 423581 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 423642 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 423703 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 423764 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 423825 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 423886 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 423947 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 26 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 [0-10] 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 440107-440746 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQGY01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH34 isolate CH34, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 440107 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 440168 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 440229 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 440290 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 440351 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 440412 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 440473 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 440534 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 440595 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 440656 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 440717 29 96.6 0 A............................ | A [440743] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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], //