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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,343,341 |
T→C |
80.9% |
I36T (ATC→ACC) |
yhbN → |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,343,341 | 0 | T | C | 80.9%
| 108.7
/ 18.2
| 47 | I36T (ATC→ACC) | yhbN | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (4/5); new base C (20/18); total (24/23) |
| Fisher's exact test for biased strand distribution p-value = 7.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCTCACTTCTGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCGGT > W3110S.gb/3343280‑3343402
|
aGCTCACTTCTGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGa < 1:2772713/71‑1 (MQ=255)
aGCTCACTTCTGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGa < 1:377892/71‑1 (MQ=255)
gCTCACTTCTGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGa < 1:18595/70‑1 (MQ=255)
aCTTCTGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCg < 1:1220540/70‑1 (MQ=255)
cTGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGAcc < 1:254758/70‑1 (MQ=255)
tGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGAcc < 1:1919852/69‑1 (MQ=255)
aGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATctct > 1:310492/1‑71 (MQ=255)
aGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATctct > 1:792602/1‑71 (MQ=255)
aGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATctct > 1:1924192/1‑71 (MQ=255)
aTTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGa < 1:384815/71‑1 (MQ=255)
ttCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGa > 1:2419617/1‑70 (MQ=255)
ttCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGa < 1:2748974/70‑1 (MQ=255)
ccGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCtt < 1:1053206/66‑1 (MQ=255)
ccGGCATTTGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGatat > 1:908305/1‑71 (MQ=255)
tttGCCGTAACCGGAGACACTGATCAGCCGATCCACATTGAATCgg < 1:2715297/46‑1 (MQ=255)
tttGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGata > 1:1520300/1‑64 (MQ=255)
tGCCGTAACCGGAGACACTGATCAGCCGCCCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGc > 1:568128/1‑70 (MQ=255)
tGCCGTAACCGGAGACACTGATCAGCCGACCCACAtt > 1:1582790/1‑37 (MQ=255)
tGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGa > 1:2667168/1‑45 (MQ=255)
tGCCGTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGc > 1:2441190/1‑70 (MQ=255)
tGCCGTAACCGGAGACACTGATCAGACGACCCACATTGaa > 1:1218144/1‑40 (MQ=38)
gTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGt < 1:2739934/71‑1 (MQ=255)
gTAACCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGt < 1:857950/71‑1 (MQ=255)
aCCGGAGACACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGt > 1:2335095/1‑71 (MQ=255)
gagaCACTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTAcc > 1:1207424/1‑71 (MQ=255)
cacTGATCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTa < 1:2320014/71‑1 (MQ=255)
cacTGATCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTa < 1:775595/71‑1 (MQ=255)
acTGATCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTg < 1:398564/60‑1 (MQ=255)
acTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTAc > 1:751738/1‑71 (MQ=255)
cTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGt < 1:1159396/58‑1 (MQ=255)
cTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGt < 1:2544251/58‑1 (MQ=255)
cTGATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCttt < 1:119482/68‑1 (MQ=255)
gATCAGCCGATCCACATTGATTCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCgg > 1:1363403/1‑71 (MQ=255)
gATCAGCCGATCCACATTGAATCGGACCCGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCg > 1:896741/1‑70 (MQ=255)
gATCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCgg > 1:46622/1‑71 (MQ=255)
gATCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCg > 1:1467680/1‑70 (MQ=255)
gATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCgg > 1:2077021/1‑71 (MQ=255)
gATCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCgg > 1:1500714/1‑71 (MQ=255)
aTCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCGGt < 1:2584587/71‑1 (MQ=255)
aTCAGACGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCttt < 1:1839532/65‑1 (MQ=255)
tCAGCCGACCCACATTGAATCGGACCAGCAATctct > 1:2216365/1‑36 (MQ=255)
tCAGCCGACCCACATTGAATCGGACCAGCAATctct > 1:1888943/1‑36 (MQ=255)
tCAGCCGACCCACATTGAATCGGACCAGCAATctct > 1:73967/1‑36 (MQ=255)
tCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCGGt < 1:2389776/70‑1 (MQ=255)
tCAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCGGt < 1:1969295/70‑1 (MQ=255)
cAGCCGACCCACATTGAATCGGACCAGCAATCTCTTGa > 1:183975/1‑38 (MQ=255)
gCCGACCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCGGt < 1:2005894/67‑1 (MQ=255)
|
AGCTCACTTCTGGCCGCCAGCATTCCGGCATTTGCCGTAACCGGAGACACTGATCAGCCGATCCACATTGAATCGGACCAGCAATCTCTTGATATGCAAGGCAACGTGGTTACCTTTACCGGT > W3110S.gb/3343280‑3343402
|
| 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
