Array 1 317160-318286 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTMO01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H59 isolate H59, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 317160 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 317221 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACTTTTC 317282 29 100.0 32 ............................. CGACGAGGTGCGAGCGATGGTATCAAGGCCTA 317343 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 317404 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 317465 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 317526 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 317587 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 317648 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 317709 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 317770 29 100.0 32 ............................. TGATCCCAATATATTTCGCTATCAGTTACATC 317831 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 317892 29 100.0 32 ............................. CGTTGATACGTAGTATTCATTACGCCTCCTAG 317953 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 318014 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318075 29 100.0 32 ............................. TAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 318136 29 100.0 32 ............................. TAGGTTATGCGCAAAAATTAATTCATATTATA 318197 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 318258 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTGTTCCCCGCGCCAGCGGGGATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGTTCCCCGCGCCAGCGGGGATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGTTCCCCGCGCCAGCGGGGATAAACCGCCAGCTTACGCTATTTACGACGTTATTGAGCAGTGTTCCCCGCGCCAGCAGGGATAAATCGAAACGAAAGAGGCTATGCGGTTGTTTATCGGTGTGTTCCCCGCGCCAGCGGGGATAAACCGTGACGCTGGTCTATACCGGCAACGAACGCGACGTGTTCCCCGCGCCAGCGGGGATAAACCGAATTA # 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: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 318447-318962 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTMO01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H59 isolate H59, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 318447 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318508 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318569 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 318630 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 318691 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 318752 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318813 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 318874 29 100.0 32 ............................. TGTTCATCGGCAGCGTCACGCAATATGAAGAT 318935 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 97.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCTAGGTGTTCCCCGCGCCAGCGGGGATAAACCGGACTGTTTATACCGGATTCCATGCGTTTTCAGGTGTTCCCCGCGCCAGCGGGGATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGTTCCCCGCGCCAGCGGGGATAAACCGTAGATCCTCAACGGTCAGGCTGTTTAGTTCCTGTGTTCCCCGCGCCAGCGGGGATAAACCGTAGGTTATGCGCAAAAATTAATTCATATTATAGTGTTCCCCGCGCCAGCAGGGATAAACCGGACGAGTTCTGGAAATGGTTAGCTGATAAAGAGTGTTCCCCGCGCCAGCGGGGATAAACCGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [5,2] 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 [-1.50,-0.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [5.0-45.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 3 335095-335794 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTMO01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H59 isolate H59, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 335095 29 100.0 31 ............................. TGCTTGAATATGATTGGGGTATATGTGGATA 335155 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 335216 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 335277 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 335338 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 335399 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 335460 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 335521 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 335582 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 335643 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 335704 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 335765 29 96.6 0 A............................ | A [335791] ========== ====== ====== ====== ============================= ================================ ================== 12 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], //