| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 2,332,641 | C→A | 100% | D87Y (GAC→TAC) | gyrA ← | DNA gyrase (type II topoisomerase), subunit A |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 2,332,641 | 0 | C | A | 98.1% | 40.9 / ‑6.8 | 15 | D87Y (GAC→TAC) | gyrA | DNA gyrase (type II topoisomerase), subunit A |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (7/7); total (7/8) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
CGATACCGGAAGAACCGTTCACCAGCAGGTTAGGAATTTTGGTTGGCATGACGTCCGGAATTTTTTCCGTGCCGTCATAGTTATCAACGAAATCGACCGTCTCTTTTTCGAGATCGGCCATCAGTTCATGGGCAATTTTCGCCAGACGGATTTCCGTATAACGCATTGCCGCCGCAGAGTCGCCGTCGATAGAACCGAAGTTACCCTGACCGTCTACCAGCATATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTCATAGACCGCCGAGTCACCATGGGGATGGTATTTACCGATTACGTCACCAACGACACGGGCAGATTTTTTATAGGCTTTGTTCCAGTCATTGCCTAGTACGTTCATGGCGTAAAGTACGCGACGGTGTACCGGCTTCAGGCCATCTCGGACATCTGGCAGCGCACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCT > CP009273/2332377‑2332908 | cGATACCGGAAGAACCGTTCACCAGCAGGTTAGGAATTTTGGTTGGCATGACGTCCGGAATTTTTTCCGTGCCGTCATAGTTATCAACGAAATCGACCGTCTCTTTTTCGAGATCGGCCATCAGTTCATGGGCAATTTTCGCCAGACGGATTTCCGTATAACGCATTGCCGCCGCAGAGTCGCCGTCGATAGAACCGAAGTTACCCTGACCGTCTACCAGCATATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCg < 1:283446‑M1/275‑2 (MQ=255) tCACCAGCAGGTTAGGAATTTTGGTTGGCATGACGTCCGGAATTTTTTCCGTGCCGTCATAGTTATCAACGAAATCGACCGTCTCTTTTTCGAGATCGGCCATCAGTTCATGGGCAATTTTCGCCAGACGGATTTCCGTATAACGCATTGCCGCCGCAGAGTCGCCGTCGATAGAACCGAAGTTACCCTGACCGTCTACCAGCATATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGAc < 1:169138/253‑1 (MQ=255) ccGGAATTTTTTCCGTGCCGTCATAGTTATCAACGAAATCGACCGTCTCTTTTTCGAGATCGGCCATCAGTTCATGGGCAATTTTCGCCAGACGGATTTCCGTATAACGCATTGACGCCGCAGAGTCGCCGTCGATAGAACCGAAGTTACCCTGACCGTCTACCAGCATATAACGCAGCGAGAATGGCGGCGCCATGCGGACGATCGTGTAATAGAACGCgtaagcatggggatgggatttaccgattacggcaccaacgatccgggcagatggc > 2:141065‑M1/1‑220 (MQ=255) aaCGCATTGCCGCCGCAGAGTCGCCGTCGATAGAACCGAAGTTACCCTGACCGTCTACCAGCATATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggt > 2:29529‑M1/1‑115 (MQ=255) cATTGCCGCCGCAGAGTCGCCGTCGATAGAACCGAAGTTACCCTGACCGTCTACCAGCATATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggtgtac < 1:29529‑M1/228‑118 (MQ=255) aCCGAAGTTACCCTGACCGTCTACCAGCCTATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgccacgggcagattttttataggctttgttcaagtcattgcctcgtacgttcatggcgtaaagnacgcgacggtgtaccggcttcaggccatctcggacatctggcagcgcacggccaacaagaaccaacatcgccaaatccccgccccttataa > 1:389962‑M1/1‑81 (MQ=255) tACCCTGCTCGGCTACCAGCATATAACGCAGCGATAATGGCTGCGCCATACGGACGATCTTGTCATAGACCGCttcaccatgggtatggtatttaccgattacgtcaccaacgacacgggcatattttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggtgtaccggcttcagtccatctcggacatcttgcagcgcacggccaacaatgtccgacatcgcataatccagataggagctcttcagctc < 1:141067‑M1/274‑202 (MQ=255) cATATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttata > 1:237867‑M1/1‑54 (MQ=255) taACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttataggct < 2:237858‑M1/114‑65 (MQ=255) aGCGAGAATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggtgtaccggctt > 1:215681‑M1/1‑44 (MQ=255) agaATGGCTGCGCCATGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggtgtaccggcttcagg < 2:215672‑M1/167‑128 (MQ=255) gaATGGCTGGGCCATGCGGATGATCGTGTAATAGACCGCgttagcagggggatggtatttaccgattacgtcaccaacgataaggtcatatgttttataggctgtgttccagtcattgcctantacgttcatggcgtaaagtacgcgacggtgtaccggcttcaggccatctcggacatctggcagcgcacggccaacaatgaccgacatcgcataatccagataggagctcttcagctcttcctcaatgttgaccggtgtaatttctctcgcaa < 1:425840‑M1/275‑237 (MQ=255) tGCGGACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggtgtaccggcttcaggccatctcggacatctggcagcgcacggccaacaatgaccgacatcgcataatccagataggagctcttcagctcttcctccatgttgaccggtgtaatttctctcgcaagtntgctcagcta > 2:53542‑M1/1‑25 (MQ=255) gACGATCGTGTAATAGACCGCgtcaccatggggatggtatttaccgattacgtcaccaacgacacgggcagattttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggtgtaccggcttcaggccatctcggacatctggcagcgcacggccaacaatgaccgacatcgcataatccagataggagctcttcagctcttcctcgatgttgaccggtgtaatttctctcgcaaggtcgctcatctaaccgc < 1:53542‑M1/275‑255 (MQ=255) cGTGTAATAGACCGCgtcaccatggggatggtatttaccgagtacgtcaccaacgacacgggcagagtttttataggctttgttccagtcattgcctagtacgttcatggcgtaaagtacgcgacggtgtaccggcttcaggccatctcggacatctggcagcgcacggccaacaatgaccgacatcgcataatccagataggagctctacagcacttcctcaatgttttccggagtactatctctcgacagttcgctcaccgtaccccttcc > 2:399053‑M1/1‑15 (MQ=255) | CGATACCGGAAGAACCGTTCACCAGCAGGTTAGGAATTTTGGTTGGCATGACGTCCGGAATTTTTTCCGTGCCGTCATAGTTATCAACGAAATCGACCGTCTCTTTTTCGAGATCGGCCATCAGTTCATGGGCAATTTTCGCCAGACGGATTTCCGTATAACGCATTGCCGCCGCAGAGTCGCCGTCGATAGAACCGAAGTTACCCTGACCGTCTACCAGCATATAACGCAGCGAGAATGGCTGCGCCATGCGGACGATCGTGTCATAGACCGCCGAGTCACCATGGGGATGGTATTTACCGATTACGTCACCAACGACACGGGCAGATTTTTTATAGGCTTTGTTCCAGTCATTGCCTAGTACGTTCATGGCGTAAAGTACGCGACGGTGTACCGGCTTCAGGCCATCTCGGACATCTGGCAGCGCACGGCCAACAATGACCGACATCGCATAATCCAGATAGGAGCTCTTCAGCTCTTCCTCAATGTTGACCGGTGTAATTTCTCTCGCAAGGTCGCTCATCTAACCGCT > CP009273/2332377‑2332908 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |