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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,101,264 |
G→A |
22.4% |
A82V (GCT→GTT) |
yggH ← |
tRNA (m7G46) methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,101,264 | 0 | G | A | 22.4%
| 101.8
/ 23.8
| 49 | A82V (GCT→GTT) | yggH | tRNA (m7G46) methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (18/20); new base A (2/9); total (20/29) |
| Fisher's exact test for biased strand distribution p-value = 1.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGGCACGCACCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAATCTCAAGCGTC > W3110S.gb/3101197‑3101311
|
cAGGCACGCACCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGc < 1:2713934/69‑1 (MQ=255)
cAGGCACGCACCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGc > 1:3005152/1‑69 (MQ=255)
cAGGCACGCACCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGc < 1:2352448/69‑1 (MQ=255)
aGGCACGCACCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc < 1:83981/69‑1 (MQ=255)
gcacCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc > 1:2204804/1‑63 (MQ=255)
gcacCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc > 1:3334179/1‑63 (MQ=255)
gcacCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc > 1:1876089/1‑63 (MQ=255)
gcacCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc > 1:3535076/1‑63 (MQ=255)
gcacCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc > 1:642359/1‑63 (MQ=255)
aaCGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGccacca > 1:3401887/1‑68 (MQ=255)
aaCGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGccacca > 1:72982/1‑68 (MQ=255)
aaCGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGccacca > 1:1230249/1‑68 (MQ=255)
aCGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGc < 1:652025/69‑1 (MQ=255)
aCGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGc < 1:3166935/69‑1 (MQ=255)
aCGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGc > 1:3000142/1‑69 (MQ=255)
tGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCa < 1:1142398/50‑1 (MQ=255)
tGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGCGACGcccc < 1:906100/69‑1 (MQ=255)
tGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGCGACGcccc < 1:2456362/69‑1 (MQ=255)
tGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGCGACGcccc < 1:2447242/69‑1 (MQ=255)
tGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGCGACGcccc < 1:1236917/69‑1 (MQ=255)
tGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGCGACGcccc < 1:488154/69‑1 (MQ=255)
cACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGc < 1:3226213/42‑1 (MQ=255)
cACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGc > 1:1199944/1‑68 (MQ=255)
cTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCaa < 1:215318/69‑1 (MQ=255)
cTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCaa < 1:1588417/69‑1 (MQ=255)
tCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGc < 1:2205772/38‑1 (MQ=255)
tCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCaaa > 1:1699324/1‑68 (MQ=255)
cAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc < 1:2414239/38‑1 (MQ=255)
cAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGcc < 1:1021392/38‑1 (MQ=255)
cAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGc < 1:3491422/37‑1 (MQ=255)
cAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGccacca > 1:2176219/1‑48 (MQ=255)
cAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCaaaa > 1:1312408/1‑68 (MQ=255)
cAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCAACGCCCCCATGCCaaaa > 1:1729623/1‑68 (MQ=255)
cAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCAACGCCCCCATGCCaaaa > 1:267832/1‑68 (MQ=255)
tGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAAcc < 1:460609/67‑1 (MQ=255)
tGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGCGACGCCCCCATGCCAAAACCa < 1:3401962/68‑1 (MQ=255)
gcagAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAAt > 1:460895/4‑69 (MQ=255)
gCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGc < 1:1786980/46‑1 (MQ=255)
gCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAAt > 1:3492426/1‑69 (MQ=255)
gCCGAGGAAGTCATGCTCAGGGCGATCTTTAGCCATTGCCGCCAGc < 1:2401588/46‑1 (MQ=38)
gTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAATCTCAAGCGt < 1:1886056/69‑1 (MQ=255)
gTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAATCTCAAGCGt < 1:1544965/69‑1 (MQ=255)
gTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCACATGCCAAAACCAATCTCAAGCGt < 1:3075255/69‑1 (MQ=255)
gTCCTGCTCAGGGCGATCTTTAACCATTGCCACCAGCGACGCCCCCATGCCAAAAcc > 1:1664300/1‑57 (MQ=255)
ccTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAATCTCAAGCGTc < 1:1342778/68‑1 (MQ=255)
cTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAATCTCAAGc > 1:2376495/1‑61 (MQ=255)
aTCTTTAACGATTGCCACCAGCGACGCCCCCATGCCAAAACCa < 1:1034202/43‑1 (MQ=38)
aTCTTTAACCATTGCCACCAGCGACGCCCCCATGCCTAAACCa < 1:476235/43‑1 (MQ=38)
aTCTTTAACCATTGCCACCAGCGACGCCCCCATGCCAAAACCa < 1:1617564/43‑1 (MQ=255)
|
CAGGCACGCACCAACGCCCGGTGAATGCACTTCAATGCCGAGGAAGTCCTGCTCAGGGCGATCTTTAGCCATTGCCACCAGCGACGCCCCCATGCCAAAACCAATCTCAAGCGTC > W3110S.gb/3101197‑3101311
|
| 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
