Array 1 787010-788562 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHS01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH44 isolate CH44, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 787010 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 787071 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 787132 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 787193 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 787254 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 787315 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 787376 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 787437 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 787498 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 787559 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 787620 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 787681 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 787742 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 787803 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 787864 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 787925 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 787986 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 788047 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 788108 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 788169 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 788230 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 788291 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 788352 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 788413 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 788474 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 788535 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 804695-805334 **** Predicted by CRISPRDetect 2.4 *** >NZ_CQHS01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH44 isolate CH44, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 804695 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 804756 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 804817 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 804878 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 804939 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 805000 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 805061 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 805122 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 805183 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 805244 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 805305 29 96.6 0 A............................ | A [805331] ========== ====== ====== ====== ============================= ================================ ================== 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], //