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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
608,310 |
A→T |
11.8% |
S648S (TCT→TCA) |
pflB ← |
pyruvate formate lyase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 608,310 | 0 | A | T | 11.8%
| 151.8
/ 12.6
| 60 | S648S (TCT→TCA) | pflB | pyruvate formate lyase I |
| Reads supporting (aligned to +/- strand): ref base A (25/27); new base T (2/5); total (27/33) |
| Fisher's exact test for biased strand distribution p-value = 4.37e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.49e-01 |
ACGATAGAGAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCAC > minE/608242‑608380
|
aCGATAGAGAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCagaga < 1:324297/71‑1 (MQ=255)
aCGATAGAGAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCaga > 1:3302705/1‑69 (MQ=255)
aCGATAGAGAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCaga > 1:3283272/1‑69 (MQ=255)
attgagaAGGTGTACGAGATCCCATCTTTGGCGTAGGTGAACGGCAGTTTCGCCACCGACGTCAATGAGGc < 1:2742794/68‑1 (MQ=255)
attgagaAGGTGTACGAGATCCCATCTTTGGCGTAGGTGAACGGCAGTTTCGCCACCGACGTCAATGAGGc < 1:267180/68‑1 (MQ=255)
aTAGAGAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGc < 1:2445083/71‑1 (MQ=255)
tAGAGAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGc > 1:428323/1‑70 (MQ=255)
agagAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCagag > 1:2221826/1‑65 (MQ=255)
agaAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGc < 1:2212037/67‑1 (MQ=255)
agaAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACt > 1:2131970/1‑71 (MQ=255)
aaGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTg > 1:1123783/1‑70 (MQ=255)
gtAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCtt > 1:953217/1‑71 (MQ=255)
tacgagaTCCCATCTTTGGCGTAGGTGAACGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCttt < 1:1753908/68‑1 (MQ=255)
ggAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTc < 1:2401660/70‑1 (MQ=255)
aTACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTc < 1:1654394/71‑1 (MQ=255)
aCCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTc > 1:1331851/1‑69 (MQ=255)
cATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGa > 1:720036/1‑71 (MQ=255)
aTCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGc < 1:3942664/48‑1 (MQ=255)
aTCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACATTTCTGGTCACGAc > 1:3260619/1‑71 (MQ=255)
tCTTTGGCGTAGGTGAACGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGAc > 1:1051499/1‑70 (MQ=255)
tttAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGt > 1:1980820/1‑71 (MQ=255)
tAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGTACCTTTCTGGTCACGACCGTg > 1:87529/1‑70 (MQ=255)
tAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGAcc < 1:2037412/67‑1 (MQ=255)
cGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATc < 1:3250035/71‑1 (MQ=255)
cGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTAACGACCGTGc < 1:913851/68‑1 (MQ=255)
cGTAAGAAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATc < 1:3164314/71‑1 (MQ=255)
tAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTc < 1:3559758/51‑1 (MQ=255)
tAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCgg > 1:1019022/1‑71 (MQ=255)
tAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTAATg < 1:355408/43‑1 (MQ=255)
aGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGc > 1:2251034/1‑42 (MQ=255)
aGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCATCTTTCTGGTCACGACCGTGCATCGGGt < 1:3696793/71‑1 (MQ=255)
aGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGt > 1:850934/1‑71 (MQ=255)
aGCAAACGGCAGTTTAGCAACGGAAGGCAGCGCGGCTACTGCACCTTTCTGGTCACGACCGTGCATCggg < 1:3344432/70‑1 (MQ=255)
gtgaaCGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGtt < 1:2517230/68‑1 (MQ=255)
gCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGt < 1:1104843/52‑1 (MQ=255)
gCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCgg > 1:1086037/1‑68 (MQ=255)
gCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGtt < 1:3646045/71‑1 (MQ=255)
aaCGGCAGTTTAGCAACGGAAGTCAGAGAGGCTAc > 1:1135848/1‑35 (MQ=255)
aaCGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCa > 1:1794823/1‑39 (MQ=255)
aaCGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATc < 1:1799456/63‑1 (MQ=255)
aCGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCa < 1:552843/71‑1 (MQ=255)
cGGCAGTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCATGCATCGGGTTAGcgc > 1:2072388/1‑69 (MQ=255)
ggCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCAcc < 1:1770690/71‑1 (MQ=255)
aGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCgg < 1:1867519/71‑1 (MQ=255)
aGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCgg < 1:539325/71‑1 (MQ=255)
gTTTCGCCACCGACGTCAATGAGGCCACGGCACCTTTGCGGTCACGACCCTGCATCGGGTTAGCGCCCggc < 1:3263540/71‑2 (MQ=255)
tttAGCATCGGAAGTCTGAGAGGCTACTGCACCTTTc < 1:2397951/37‑1 (MQ=255)
tttAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGAcc < 1:2470539/48‑1 (MQ=255)
tttAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTc > 1:3031956/1‑71 (MQ=255)
tAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTcc > 1:878034/1‑70 (MQ=255)
tAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTcc > 1:2954541/1‑70 (MQ=255)
tAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTcc > 1:3643701/1‑70 (MQ=255)
tAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTc > 1:2297856/1‑69 (MQ=255)
aGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCAcc > 1:323299/1‑63 (MQ=255)
gCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGa < 1:1527459/70‑1 (MQ=255)
aaCGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACg < 1:2364158/71‑1 (MQ=255)
aCGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACgg > 1:3186160/1‑71 (MQ=255)
aCGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACg < 1:3366397/70‑1 (MQ=255)
cGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgc > 1:1922/1‑71 (MQ=255)
ggAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgcg > 1:3165444/1‑71 (MQ=255)
aaGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGc < 1:1505466/52‑1 (MQ=255)
aaGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGc < 1:751043/52‑1 (MQ=255)
aGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgcgcgc > 1:779293/1‑71 (MQ=255)
gTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCg < 1:2161746/55‑1 (MQ=255)
agagagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGtt > 1:546803/1‑44 (MQ=255)
agagagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCa < 1:1961746/69‑1 (MQ=255)
agagagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGc < 1:2220336/71‑1 (MQ=255)
agagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCac < 1:2923959/71‑1 (MQ=255)
|
ACGATAGAGAAGGTGTAGGAGATACCATCTTTAGCGTAAGCAAACGGCAGTTTAGCAACGGAAGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCAC > minE/608242‑608380
|
| 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
