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 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,800,301 |
A→C |
25.0% |
F119C (TTC→TGC) |
pheS ← |
phenylalanine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,800,301 | 0 | A | C | 25.0%
| 59.0
/ 37.6
| 52 | F119C (TTC→TGC) | pheS | phenylalanine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (16/23); new base C (5/8); total (21/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCATCGAAGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCA > W3110S.gb/1800232‑1800370
|
gCATCGAAGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCgaaga > 1:3638270/1‑70 (MQ=255)
gCATCGAAGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCgaaga > 1:4040290/1‑70 (MQ=255)
aTCGAAGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAAc > 1:3585341/1‑71 (MQ=255)
gAAGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACtt < 1:3310161/70‑1 (MQ=255)
gAAGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACttt > 1:3332966/1‑71 (MQ=255)
aaGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTc < 1:3620032/71‑1 (MQ=255)
aTGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATAc > 1:2569971/1‑71 (MQ=255)
tGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATAc < 1:1056600/70‑1 (MQ=255)
gATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACgg > 1:1103935/1‑71 (MQ=255)
tAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAAc > 1:1281766/1‑58 (MQ=255)
tAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTc < 1:3375176/71‑1 (MQ=255)
tAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTc < 1:1635662/71‑1 (MQ=255)
aaTCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTc > 1:2142944/1‑70 (MQ=255)
aTCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGa < 1:2120692/71‑1 (MQ=255)
tCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGAt < 1:921644/71‑1 (MQ=255)
gTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATgg > 1:3986706/1‑71 (MQ=255)
gTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATgg > 1:2086271/1‑71 (MQ=255)
gTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATgg < 1:2962864/71‑1 (MQ=255)
gTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATgg < 1:475184/71‑1 (MQ=255)
gTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATgg < 1:1349159/71‑1 (MQ=255)
tCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACTTTCGa < 1:1747275/58‑1 (MQ=255)
tCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGa < 1:3811799/58‑1 (MQ=255)
ttCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATGGTAc > 1:620719/1‑71 (MQ=255)
ttCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTAc > 1:3102632/1‑71 (MQ=255)
ttCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTAc > 1:3931701/1‑71 (MQ=255)
ttCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTAc > 1:2900563/1‑71 (MQ=255)
ttCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTAc > 1:2952409/1‑71 (MQ=255)
cGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGa > 1:3763693/1‑63 (MQ=255)
aTTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATGGTACGGGt < 1:1114910/71‑1 (MQ=255)
tCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAAc > 1:2124448/1‑71 (MQ=255)
cGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:399861/71‑1 (MQ=255)
cGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:700946/71‑1 (MQ=255)
cGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:31177/71‑1 (MQ=255)
cGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:2060839/71‑1 (MQ=255)
gCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGa > 1:925902/1‑46 (MQ=255)
gCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGa > 1:2228157/1‑46 (MQ=255)
gTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:641870/55‑1 (MQ=255)
gTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:1629971/55‑1 (MQ=255)
gTAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:2880966/55‑1 (MQ=255)
tAAAGCCAAGCTCACCGAAGCAACTTTCGATACGGTCGAt < 1:3645802/40‑1 (MQ=255)
aaaGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGttt > 1:862346/1‑70 (MQ=255)
aaaGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGttt > 1:2025473/1‑70 (MQ=255)
aaGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTc < 1:1175585/71‑1 (MQ=255)
aaGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTc < 1:3882382/71‑1 (MQ=255)
aaGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTc < 1:2583908/71‑1 (MQ=255)
gCCAAGCTCACCGAAGAAACTTTCGATACGGTCGa > 1:1766837/1‑35 (MQ=255)
gCCAAGCTCACCGAAGAAACTTTCGATACGGTCGa > 1:1386877/1‑35 (MQ=255)
gCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTc < 1:2961502/69‑1 (MQ=255)
cAAGCTCACCGAAGAAACTTTCGATACGGTCTATGGTACGGGTAACCg < 1:1606716/48‑1 (MQ=255)
cAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:3190011/48‑1 (MQ=255)
cAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:1370780/48‑1 (MQ=255)
cAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:3498610/48‑1 (MQ=255)
aGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCg < 1:3500097/46‑1 (MQ=255)
cGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTc < 1:850972/58‑1 (MQ=255)
gaaACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCa < 1:1627885/71‑1 (MQ=255)
aaaCTTTCGATTCGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCa < 1:3539785/70‑1 (MQ=255)
aaaCTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCa < 1:3049451/70‑1 (MQ=255)
|
GCATCGAAGTTATGATAATCGTCTTCGATTTCCGGCCCGGTTGCCACGGTAAAGCCAAGCTCACCGAAGAAACTTTCGATACGGTCGATGGTACGGGTAACCGGATGCAGACCGCCGTTTTCAATGCGACGACCTGGCA > W3110S.gb/1800232‑1800370
|
| 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
