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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,093,241 |
C→A |
8.6% |
G207C (GGT→TGT) |
gntT ← |
gluconate transporter, high‑affinity GNT I system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,093,241 | 0 | C | A | 8.6%
| 224.3
/ 4.8
| 69 | G207C (GGT→TGT) | gntT | gluconate transporter, high‑affinity GNT I system |
| Reads supporting (aligned to +/- strand): ref base C (33/30); new base A (2/4); total (35/34) |
| Fisher's exact test for biased strand distribution p-value = 4.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.00e-01 |
AGAGGTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCGG > W3110S.gb/4093173‑4093310
|
agagGTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCtt < 1:2069556/71‑1 (MQ=255)
gTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCt < 1:2521722/66‑1 (MQ=255)
cAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAAt > 1:161298/1‑71 (MQ=255)
cAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTG‑AGGTTTTCGCGCTGTAGAGACATTCCGGAAtt < 1:2684691/71‑1 (MQ=255)
aGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAAtt < 1:2391335/71‑1 (MQ=255)
aGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAAtt < 1:4204637/71‑1 (MQ=255)
gACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTg > 1:3255493/1‑71 (MQ=255)
aCGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTgg > 1:3439028/1‑71 (MQ=255)
gCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGaa > 1:977623/1‑65 (MQ=255)
gCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCt < 1:650564/71‑1 (MQ=255)
gCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCt < 1:1845803/71‑1 (MQ=255)
tGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAAtt > 1:3376058/1‑65 (MQ=255)
aCGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTa < 1:1732867/69‑1 (MQ=255)
cGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATc > 1:4291340/1‑70 (MQ=255)
gCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGa > 1:4609495/1‑71 (MQ=255)
ccAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGa > 1:1250959/1‑70 (MQ=255)
cAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATa > 1:2927984/1‑71 (MQ=255)
cAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATa > 1:1261844/1‑71 (MQ=255)
cAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATa > 1:1408459/1‑71 (MQ=255)
aaaGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATAc > 1:3414112/1‑71 (MQ=255)
aaGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCTCTGTAGAGACCTTACGGAATTGGCTTATCg > 1:4470787/1‑66 (MQ=255)
aaGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATAcc > 1:976529/1‑71 (MQ=255)
aaGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATAcc < 1:4483552/71‑1 (MQ=255)
aGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCt > 1:2243704/1‑71 (MQ=255)
aGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCt > 1:190639/1‑71 (MQ=255)
gCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTcc < 1:2834792/49‑1 (MQ=255)
gCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAac < 1:2794584/71‑1 (MQ=255)
gCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGATACCTTTCaa > 1:4159512/1‑70 (MQ=255)
cATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAaca > 1:1200231/1‑71 (MQ=255)
aTCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAacac > 1:1002755/1‑71 (MQ=255)
tctcTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAAtt < 1:1659902/47‑1 (MQ=255)
tcttctTCGCTGAAGGTTTTCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGATACCTTTCAACAcgc > 1:3008377/1‑70 (MQ=255)
ttcttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGaa < 1:77249/41‑1 (MQ=255)
ttcttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATc < 1:3658003/51‑1 (MQ=255)
ttcttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAacac > 1:2183459/1‑66 (MQ=255)
ttcttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACAcgc < 1:1988532/68‑1 (MQ=255)
ttcatcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAg > 1:1623254/1‑71 (MQ=255)
tcttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTGCGGAATTGGCTTATCGATACCTTTCAACACGCGAGc > 1:4157900/1‑71 (MQ=255)
tcttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCgg < 1:1811896/38‑1 (MQ=255)
cttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGa < 1:366000/68‑1 (MQ=255)
cttcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCg > 1:2564704/1‑71 (MQ=255)
tcGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTc > 1:3606111/1‑57 (MQ=255)
cGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGt < 1:718226/69‑1 (MQ=255)
gCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTaaa < 1:71254/71‑1 (MQ=255)
gCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTaaa < 1:76735/71‑1 (MQ=255)
gCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTaa < 1:951521/70‑1 (MQ=255)
tGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTc < 1:2018292/53‑1 (MQ=255)
gAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccg > 1:14302/1‑71 (MQ=255)
aaGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGa > 1:3524823/1‑43 (MQ=255)
ggTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccggac > 1:2431388/1‑71 (MQ=255)
ggTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccgga > 1:496670/1‑70 (MQ=255)
gTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccggacc < 1:2746481/71‑1 (MQ=255)
ttttCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccggacc < 1:3658524/70‑1 (MQ=255)
ttCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccggaccgg > 1:1151735/1‑70 (MQ=255)
tCGCGCTGTAGAGACATTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGc < 1:4443956/70‑1 (MQ=255)
gcgcTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTaa < 1:2676189/57‑1 (MQ=255)
cTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccgg > 1:3142748/1‑59 (MQ=255)
cTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAAt < 1:3061771/71‑1 (MQ=255)
tAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAAt > 1:4494890/1‑68 (MQ=255)
tAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCAc < 1:4345893/71‑1 (MQ=255)
gagaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCga < 1:4525121/62‑1 (MQ=255)
gagaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACgg > 1:431669/1‑71 (MQ=255)
gagaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACg < 1:3581929/70‑1 (MQ=255)
gaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAacc > 1:2210381/1‑50 (MQ=255)
gaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTc < 1:3615053/71‑1 (MQ=255)
gaCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTc > 1:196790/1‑71 (MQ=255)
gaCATTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTc < 1:1453850/71‑1 (MQ=255)
aCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTaa < 1:4353998/46‑1 (MQ=255)
aCCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAaccggaccgg < 1:381149/56‑1 (MQ=255)
cTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCg > 1:1115708/1‑56 (MQ=255)
cTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCgg > 1:2846543/1‑70 (MQ=255)
cTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCgg > 1:2124182/1‑70 (MQ=255)
|
AGAGGTCCAGACGCTGACGCCAAAGCTCGGCATCTCTTCTTCGCTGAAGGTTTTCGCGCTGTAGAGACCTTCCGGAATTGGCTTATCGATACCTTTCAACACGCGAGCGTAAACCGGACCGGCGAGAATCACGGTCGG > W3110S.gb/4093173‑4093310
|
| 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
