| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | minE | 1,683,445:1 | +CCA | 100% | coding (1529/4962 nt) | yfhM ← | conserved hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | minE | 1,683,445 | 1 | . | C | 88.9% | 25.8 / ‑2.2 | 9 | coding (1529/4962 nt) | yfhM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (8/0); total (9/0) | |||||||||||
| 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: Variant not supported by required number of reads on each strand. | |||||||||||
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. | |||||||||||
| * | minE | 1,683,445 | 2 | . | C | 88.9% | 20.5 / ‑2.2 | 9 | coding (1529/4962 nt) | yfhM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (8/0); total (9/0) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.68e-01 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. | |||||||||||
| * | minE | 1,683,445 | 3 | . | A | 88.9% | 22.5 / ‑1.9 | 9 | coding (1529/4962 nt) | yfhM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base A (8/0); total (9/0) | |||||||||||
| 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: Variant not supported by required number of reads on each strand. | |||||||||||
CATTAGCAGGTGCACCATACAGGTAGTACC‑‑‑CCACCACGGAGAATTTCACTTCATCTTTCGGCGTTAGCGGGGTTTTCTCA > minE/1683416‑1683495 ||| cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:1049657/1‑65 (MQ=255)cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:1489141/1‑65 (MQ=255)cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:2134411/1‑65 (MQ=255)cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:2136783/1‑65 (MQ=255)cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:433969/1‑65 (MQ=255)cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:574448/1‑65 (MQ=255)cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:715887/1‑65 (MQ=255)cATTAGCAGGTGCACCATACAGGTAGTACCCCACCACCACGGAGAATTTCACTTCATCTTTCGGc > 1:78248/1‑65 (MQ=255) aCCATACAGGTAGTACC‑‑‑CCACCACGGAGAATTTCACTTCATCTTTCGGCGTTAGCGTGGTTTTCTCa > 1:1828938/1‑67 (MQ=255) ||| CATTAGCAGGTGCACCATACAGGTAGTACC‑‑‑CCACCACGGAGAATTTCACTTCATCTTTCGGCGTTAGCGGGGTTTTCTCA > minE/1683416‑1683495 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |