Array 1 317146-318820 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTLM01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain EWH6 isolate EWH6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 317146 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 317207 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 317268 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 317329 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 317390 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 317451 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 317512 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 317573 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 317634 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 317695 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 317756 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 317817 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 317878 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 317939 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 318000 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 318061 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 318122 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 318183 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 318244 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318305 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 318366 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 318427 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 318488 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 318549 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 318610 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 318671 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 318732 29 100.0 32 ............................. TGTTCATCGGCAGCGTCACGCAATATGAAGAT 318793 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 28 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 [0-9] 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 334953-335592 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTLM01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain EWH6 isolate EWH6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 334953 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 335014 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 335075 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 335136 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 335197 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 335258 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 335319 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 335380 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 335441 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 335502 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 335563 29 96.6 0 A............................ | A [335589] ========== ====== ====== ====== ============================= ================================ ================== 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], // Array 3 337536-338053 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTLM01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain EWH6 isolate EWH6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 337536 29 100.0 32 ............................. AACAAATTGAGACTATTAGAGATTATTCGCCT 337597 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 337658 29 100.0 32 ............................. TGTGGTTATAACATCGCAGCAAAATCAAAAGA 337719 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 337780 29 100.0 32 ............................. GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 337841 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 337902 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 337963 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 338024 29 96.6 0 A............................ | A [338050] ========== ====== ====== ====== ============================= ================================ ================== 9 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATCTGGCGCGTAAGGCGTTTTATCCGGGTACGTTGCCGTTCCCGCTATTGCACGTTGATACCGGTTGGAAATTCCGTGAGATGTACGCCTTTCGCGATCGTACCGCCAACGCATACGGCTGCGAATTGCTGGTACATAAAAATCCGGAAGGCGTGGCGATGGGCATCAATCCGTTCGTTCACGGTAGCGCTAAACACACCGACATTATGAAAACCGAAGGGTTAAAGCAGGCGCTGAATAAGTACGGTTTTGATGCCGCGTTCGGCGGCGCACGGCGCGATGAGGAAAAATCCCGTGCGAAAGAACGTATTTACTCCTTTCGTGACCGTTTCCATCGCTGGGACCCGAAAAATCAGCGGCCAGAGTTGTGGCGTAACTATAACGGTCAGATTAATAAAGGCGAAAGTATACGCGTCTTCCCGCTCTCCAACTGGACAGAGCAGGATATCTGGCAATACATCTGGCTGGNTCCAGCGCTCGAATTTATTTGAGGCCACCAC # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [48.3-48.3]%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], //