Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A2 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,798,695 |
A→G |
11.5% |
Q239R (CAA→CGA) |
proV → |
glycine betaine transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,798,695 | 0 | A | G | 11.5%
| 127.6
/ 10.3
| 52 | Q239R (CAA→CGA) | proV | glycine betaine transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (23/23); new base G (4/2); total (27/25) |
| Fisher's exact test for biased strand distribution p-value = 6.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.35e-01 |
ACCATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGTC > minE/1798628‑1798762
|
aCCATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCaaaa < 1:427164/71‑1 (MQ=255)
cATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATg < 1:1515658/71‑1 (MQ=255)
gTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTg > 1:56519/1‑70 (MQ=255)
gTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTg > 1:709360/1‑70 (MQ=255)
gTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTg > 1:1644228/1‑70 (MQ=255)
tCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGaa < 1:685523/71‑1 (MQ=255)
tCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGaa < 1:1775610/71‑1 (MQ=255)
tATTTCCCACGATCTTGATGAAGCCACGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTgg > 1:71684/1‑71 (MQ=255)
tttCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTgg < 1:2072901/69‑1 (MQ=255)
tttCCCACGATCTTGAAGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATgg < 1:2174638/61‑1 (MQ=255)
tCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTa > 1:1236929/1‑69 (MQ=255)
tCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTa > 1:357791/1‑69 (MQ=255)
tCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTa > 1:1830607/1‑69 (MQ=255)
tCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTAc < 1:1964429/70‑1 (MQ=255)
ccACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAg < 1:2128744/70‑1 (MQ=255)
aCGATCTTGATGAAGCCATTCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTc < 1:2107676/71‑1 (MQ=255)
aCGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTc < 1:773592/71‑1 (MQ=255)
tCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTg > 1:1828014/1‑53 (MQ=255)
cTTGATGAAGCCATGCGTATTGGCGACCGAATTGCTATTATGCAAAATGGTGAAGTGGTACAGGTCGGca > 1:2002901/1‑70 (MQ=255)
gatgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCgg < 1:394176/65‑1 (MQ=255)
gatgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCacac < 1:2144737/70‑1 (MQ=255)
atgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCg < 1:1541961/71‑1 (MQ=255)
atgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCg < 1:2113342/71‑1 (MQ=255)
tgaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCgg < 1:1887928/63‑1 (MQ=255)
gaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTg < 1:164902/51‑1 (MQ=255)
gaAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTg < 1:204250/51‑1 (MQ=255)
gCCATGCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGa < 1:1796900/71‑1 (MQ=255)
cATGCGTATTGGCGACCGAATTGCCATTATGCgaaa > 1:151657/1‑36 (MQ=255)
cATGCGTATTGGCGACCGAATTGCCATTATGCgaaa > 1:1524200/1‑36 (MQ=255)
aTGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAAt < 1:1879549/71‑1 (MQ=255)
tGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAAtt > 1:1315404/1‑71 (MQ=255)
tGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAAtt > 1:1312941/1‑71 (MQ=255)
tGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAAtt > 1:965359/1‑71 (MQ=255)
gCGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTAc > 1:965112/1‑47 (MQ=255)
cGTATTGGCGACCGAATTGCCATTATGCGAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATtc < 1:1473557/70‑1 (MQ=255)
cGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGaa > 1:753101/1‑39 (MQ=255)
cGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATtct > 1:959515/1‑71 (MQ=255)
gTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATtc < 1:604164/69‑1 (MQ=255)
ttGGCGACCGAATTGCCATTATGCAAAATGGTGaa > 1:1924367/1‑35 (MQ=255)
ttGGCGACCGAATTGCCATTATGCAAAATGGTGAAg > 1:862788/1‑36 (MQ=255)
ggCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaata < 1:129645/70‑1 (MQ=255)
ggCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCaata < 1:664299/70‑1 (MQ=255)
cGAATTGCCATTATGCGAAATGGTGAAGTGGTACTGGTCGGCACACCGGATGAATTTCTCAATAATCCgg > 1:1835977/1‑70 (MQ=255)
cGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGc > 1:689202/1‑71 (MQ=255)
cGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGc > 1:91579/1‑71 (MQ=255)
cGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGG‑ACACCGGATGAAATTCTCAATAATCCGGc > 1:1305100/1‑70 (MQ=255)
ttGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGca > 1:1646612/1‑39 (MQ=255)
ttGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAAt > 1:1368484/1‑71 (MQ=255)
ccATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGa < 1:987372/70‑1 (MQ=255)
cATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAAt < 1:1481257/67‑1 (MQ=255)
ttATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCg < 1:185301/62‑1 (MQ=255)
ttATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTAt > 1:982448/1‑71 (MQ=255)
aTGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTa > 1:693867/1‑68 (MQ=255)
aTGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTa > 1:16602/1‑68 (MQ=255)
tGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGTc > 1:2152830/1‑71 (MQ=255)
|
ACCATTGTCTTTATTTCCCACGATCTTGATGAAGCCATGCGTATTGGCGACCGAATTGCCATTATGCAAAATGGTGAAGTGGTACAGGTCGGCACACCGGATGAAATTCTCAATAATCCGGCGAATGATTATGTC > minE/1798628‑1798762
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
