Array 1 787074-788687 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHC01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH50 isolate CH50, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 787074 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 787135 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 787196 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 787257 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 787318 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 787379 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 787440 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 787501 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 787562 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 787623 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 787684 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 787745 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 787806 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 787867 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 787928 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 787989 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 788050 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 788111 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788172 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788233 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 788294 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 788355 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 788416 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 788477 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 788538 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 788599 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 788660 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 804820-805459 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHC01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH50 isolate CH50, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 804820 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 804881 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 804942 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 805003 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 805064 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 805125 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 805186 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 805247 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 805308 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 805369 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 805430 29 96.6 0 A............................ | A [805456] ========== ====== ====== ====== ============================= ================================ ================== 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], //