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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
515,934 |
C→T |
82.0% |
A43V (GCG→GTG) |
ybbM → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 515,934 | 0 | C | T | 82.0%
| 111.2
/ 18.6
| 50 | A43V (GCG→GTG) | ybbM | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (4/5); new base T (27/14); total (31/19) |
| Fisher's exact test for biased strand distribution p-value = 2.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
GCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGGATGATGCCAGCCT > W3110S.gb/515867‑516000
|
gCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGAt < 1:851049/71‑1 (MQ=255)
cTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAAtt > 1:2818992/1‑70 (MQ=255)
cTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAAtt > 1:1276036/1‑70 (MQ=255)
cTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAAtt > 1:2035987/1‑70 (MQ=255)
cTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAAt > 1:3552070/1‑69 (MQ=255)
ttAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAAtt > 1:1996516/1‑69 (MQ=255)
ttAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAAtt > 1:2568521/1‑69 (MQ=255)
gCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGatt < 1:2011793/71‑1 (MQ=255)
gCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGatt < 1:2777215/71‑1 (MQ=255)
gCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGatt < 1:2246246/71‑1 (MQ=255)
gCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGatt < 1:1054657/71‑1 (MQ=255)
aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTc > 1:956864/1‑71 (MQ=255)
aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTc > 1:2009641/1‑71 (MQ=255)
aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTc > 1:2018235/1‑71 (MQ=255)
aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTc > 1:594624/1‑71 (MQ=255)
aaGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTc > 1:3427165/1‑71 (MQ=255)
gAAAAACTGGCGCTGGAGAAAGATATTCTCTTGAGCGTCGGGCGAGTGATAATTCAGCTGattatt < 1:1675236/66‑1 (MQ=255)
gAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGattatt < 1:194625/66‑1 (MQ=255)
gAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGattatt < 1:1773226/66‑1 (MQ=255)
gAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGattatt < 1:544190/66‑1 (MQ=255)
aaaaaCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGattatt < 1:2610911/65‑1 (MQ=255)
aaaCTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTa > 1:1357559/1‑71 (MQ=255)
ggCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGat > 1:1005638/1‑54 (MQ=255)
cTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGa < 1:929919/49‑1 (MQ=255)
ggAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGatt > 1:2943779/1‑49 (MQ=255)
ggAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGat > 1:2831390/1‑48 (MQ=255)
ggAGAAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAg > 1:299073/1‑70 (MQ=255)
ggAGAAAGATATTCTCTGGAGCGTCGCGCGAGTGATAATTCAGCTGatt > 1:53609/1‑49 (MQ=255)
agaAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta > 1:177839/1‑70 (MQ=255)
agaAAGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGta > 1:314989/1‑70 (MQ=255)
gaAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGtata < 1:2603071/71‑1 (MQ=255)
aaGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATAtt < 1:2658815/71‑1 (MQ=255)
aaGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATAtt < 1:860644/71‑1 (MQ=255)
aaGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATAtt < 1:1936979/71‑1 (MQ=255)
aGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTAt > 1:1064632/1‑55 (MQ=255)
aGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATAttt > 1:995672/1‑71 (MQ=255)
aGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATAttt > 1:3443216/1‑71 (MQ=255)
aGATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATAtt > 1:2541516/1‑70 (MQ=255)
gATATTCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATAtttt < 1:145323/71‑1 (MQ=255)
ttCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGaa > 1:758598/1‑58 (MQ=255)
ttCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGaa > 1:3144933/1‑58 (MQ=255)
ttCTCTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGc > 1:1780015/1‑71 (MQ=255)
ttCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTAtg > 1:3498935/1‑51 (MQ=255)
tctcTGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCg > 1:1345194/1‑71 (MQ=255)
ctctGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTc > 1:2551128/1‑66 (MQ=255)
tGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTg < 1:868707/69‑1 (MQ=255)
tGGAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTg < 1:1101706/69‑1 (MQ=255)
gAGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgat < 1:2935727/70‑1 (MQ=255)
aGCGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGgatga > 1:1474517/1‑71 (MQ=255)
cGTCGGGCGAGTGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGGatgatg > 1:681802/1‑71 (MQ=255)
cgagcgaTAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGGATGATGCCAGCCt > 1:1391382/1‑71 (MQ=255)
|
GCAATCTTAATTAGCCATAAAGAAAAACTGGCGCTGGAGAAAGATATTCTCTGGAGCGTCGGGCGAGCGATAATTCAGCTGATTATTGTCGGCTATGTGCTGAAGTATATTTTCAGCGTGGATGATGCCAGCCT > W3110S.gb/515867‑516000
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
