Array 1 647167-648780 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHA01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH14 isolate CH14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 647167 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 647228 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 647289 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 647350 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 647411 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 647472 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 647533 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 647594 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 647655 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 647716 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 647777 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 647838 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 647899 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 647960 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 648021 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 648082 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 648143 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 648204 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 648265 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 648326 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 648387 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 648448 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 648509 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 648570 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 648631 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 648692 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 648753 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 664913-665552 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHA01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH14 isolate CH14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 664913 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 664974 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 665035 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 665096 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 665157 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 665218 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 665279 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 665340 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 665401 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 665462 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 665523 29 96.6 0 A............................ | A [665549] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAGTCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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], //