Array 1 220008-221621 **** Predicted by CRISPRDetect 2.4 *** >NZ_PJUM01000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 388 388M_trimmed_contig_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 220008 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 220069 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 220130 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 220191 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 220252 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 220313 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 220374 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 220435 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 220496 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 220557 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 220618 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 220679 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 220740 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 220801 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 220862 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 220923 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 220984 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 221045 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 221106 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 221167 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 221228 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 221289 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 221350 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 221411 29 96.6 32 ........A.................... CAGGTTATGCGCAAAAATTAATTCATATTATA 221472 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 221533 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 221594 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.7 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 237754-238393 **** Predicted by CRISPRDetect 2.4 *** >NZ_PJUM01000008.1 Salmonella enterica subsp. enterica serovar Typhimurium strain 388 388M_trimmed_contig_8, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 237754 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 237815 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 237876 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 237937 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 237998 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 238059 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 238120 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 238181 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 238242 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 238303 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 238364 29 96.6 0 A............................ | A [238390] ========== ====== ====== ====== ============================= ================================ ================== 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], //