Array 1 423875-425427 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTHQ01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H111 isolate H111, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 423875 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 423936 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 423997 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 424058 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 424119 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 424180 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 424241 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 424302 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 424363 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 424424 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 424485 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 424546 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 424607 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 424668 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 424729 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 424790 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 424851 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 424912 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 424973 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 425034 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 425095 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 425156 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 425217 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 425278 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 425339 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 425400 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 441560-442199 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTHQ01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H111 isolate H111, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 441560 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 441621 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 441682 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 441743 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 441804 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 441865 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 441926 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 441987 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 442048 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 442109 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 442170 29 96.6 0 A............................ | A [442196] ========== ====== ====== ====== ============================= ================================ ================== 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], //