Array 1 163539-162123 **** Predicted by CRISPRDetect 2.4 *** >NZ_NHQV01000045.1 Salmonella enterica subsp. enterica serovar Typhimurium strain UGA19 Contig45, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163538 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163477 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 163415 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 163354 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 163293 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 163232 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 163171 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 163110 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 163049 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162988 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 162927 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162866 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162805 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162743 29 100.0 74 ............................. AATAAGGCGCGGTACCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162640 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 162579 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162518 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 162457 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 162396 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 162335 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162274 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 162213 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162152 29 96.6 0 A............................ | A [162125] ========== ====== ====== ====== ============================= ========================================================================== ================== 23 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 180798-179671 **** Predicted by CRISPRDetect 2.4 *** >NZ_NHQV01000045.1 Salmonella enterica subsp. enterica serovar Typhimurium strain UGA19 Contig45, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 180797 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 180736 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 180675 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 180614 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 180553 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 180492 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 180431 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 180370 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 180309 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180248 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 180186 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 180125 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 180064 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 180003 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 179942 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 179881 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 179820 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 179759 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 179698 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 19 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //