Array 1 787066-788679 **** Predicted by CRISPRDetect 2.4 *** >NZ_CIJW01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH29 isolate CH29, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 787066 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 787127 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 787188 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 787249 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 787310 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 787371 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 787432 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 787493 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 787554 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 787615 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 787676 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 787737 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 787798 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 787859 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 787920 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 787981 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 788042 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 788103 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788164 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788225 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 788286 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 788347 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 788408 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 788469 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 788530 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 788591 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 788652 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 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 [0-9] 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 804812-805451 **** Predicted by CRISPRDetect 2.4 *** >NZ_CIJW01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH29 isolate CH29, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 804812 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 804873 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 804934 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 804995 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 805056 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 805117 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 805178 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 805239 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 805300 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 805361 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 805422 29 96.6 0 A............................ | A [805448] ========== ====== ====== ====== ============================= ================================ ================== 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], //