Array 1 787029-788581 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHN01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH41 isolate CH41, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 787029 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 787090 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 787151 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 787212 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 787273 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 787334 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 787395 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 787456 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 787517 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 787578 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 787639 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 787700 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 787761 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 787822 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 787883 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 787944 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 788005 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 788066 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788127 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 788188 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 788249 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 788310 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 788371 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 788432 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 788493 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 788554 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.8 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 804714-805353 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHN01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH41 isolate CH41, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 804714 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 804775 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 804836 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 804897 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 804958 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 805019 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 805080 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 805141 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 805202 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 805263 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 805324 29 96.6 0 A............................ | A [805350] ========== ====== ====== ====== ============================= ================================ ================== 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], //