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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,569,965 |
T→C |
46.8% |
Q191Q (CAA→CAG) |
yddW ← |
predicted liprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,569,965 | 0 | T | C | 46.8%
| 4.9
/ 84.1
| 62 | Q191Q (CAA→CAG) | yddW | predicted liprotein |
| Reads supporting (aligned to +/- strand): ref base T (16/17); new base C (12/17); total (28/34) |
| Fisher's exact test for biased strand distribution p-value = 6.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.93e-01 |
CCTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTACC > W3110S.gb/1569898‑1570024
|
ccTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTg > 1:3310291/1‑70 (MQ=255)
ccTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTg > 1:3188300/1‑70 (MQ=255)
ccTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTg > 1:2698790/1‑70 (MQ=255)
ccTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTg > 1:1293144/1‑70 (MQ=255)
ccTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTg > 1:2149644/1‑70 (MQ=255)
ccTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTg > 1:205826/1‑70 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTgga > 1:1624740/1‑69 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:897892/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:896690/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:3250238/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:221002/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:2124337/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:2075965/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:1888820/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:1157880/1‑71 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGca < 1:474253/71‑1 (MQ=255)
gTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGgttgtt < 1:764955/71‑1 (MQ=255)
gTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGgttgtt < 1:2208786/71‑1 (MQ=255)
gTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGgttgtt < 1:1513423/71‑1 (MQ=255)
gTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGgttgtt < 1:397890/71‑1 (MQ=255)
tCGAGGACAAAGCGATCGCCAGACCTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGgttgtt < 1:827707/70‑1 (MQ=255)
aaaGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGCCGCTCGCCGGTTGTTGAGAc > 1:3342177/1‑67 (MQ=255)
aaaGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACa > 1:1814693/1‑68 (MQ=255)
aaaGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACa > 1:1495978/1‑68 (MQ=255)
aaaGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACa > 1:498367/1‑68 (MQ=255)
aaaGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACa > 1:742146/1‑68 (MQ=255)
aaaGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACa > 1:1052275/1‑68 (MQ=255)
aaGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACa < 1:2951650/67‑1 (MQ=255)
aGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTg < 1:355861/71‑1 (MQ=255)
aGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTg < 1:351901/71‑1 (MQ=255)
aGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTg < 1:1072417/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTg < 1:1007111/70‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:1133835/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:1997841/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:790233/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:1535538/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:679515/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:66058/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:519378/71‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:3313133/71‑1 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACTGAGTGCTATTCAGTTCCCTGa < 1:603397/70‑1 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:3326696/70‑1 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:2466905/70‑1 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:253629/70‑1 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:2066282/70‑1 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:779124/70‑1 (MQ=255)
tGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:2749562/69‑1 (MQ=255)
aTCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTTTTCAGTTCCCTGATAGt < 1:1120845/71‑1 (MQ=255)
aTCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:2406777/71‑1 (MQ=255)
aTCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:1347273/71‑1 (MQ=255)
aTCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:2098089/71‑1 (MQ=255)
aTCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:2080557/71‑1 (MQ=255)
aTCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:522752/71‑1 (MQ=255)
aTCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:2972810/71‑1 (MQ=255)
cAGTCGCGGTGTTTCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTAc > 1:108359/1‑70 (MQ=255)
cAGTCGCGGTGTTGCACATAGACGCTCGCCGGttgttg > 1:844435/1‑38 (MQ=255)
cAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTAcc > 1:3164305/1‑71 (MQ=255)
cAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTAcc > 1:746664/1‑71 (MQ=255)
cAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTAcc > 1:67040/1‑71 (MQ=255)
cAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTAcc > 1:1924878/1‑71 (MQ=255)
cAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTAc > 1:1586783/1‑70 (MQ=255)
ttCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGc < 1:2367360/46‑1 (MQ=255)
|
CCTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGTACC > W3110S.gb/1569898‑1570024
|
| 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
