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 |
3,533,883 |
T→C |
8.2% |
intergenic (‑24/+125) |
yiiM ← / ← kdgT |
conserved hypothetical protein/2‑keto‑3‑deoxy‑D‑gluconate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,533,883 | 0 | T | C | 8.2%
| 168.7
/ 6.8
| 61 | intergenic (‑24/+125) | yiiM/kdgT | conserved hypothetical protein/2‑keto‑3‑deoxy‑D‑gluconate transporter |
| Reads supporting (aligned to +/- strand): ref base T (29/27); new base C (2/3); total (31/30) |
| Fisher's exact test for biased strand distribution p-value = 6.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
GATAAGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCCAGGCAGGAACTC > W3110S.gb/3533814‑3533951
|
gATAAGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTc < 1:1443319/71‑1 (MQ=255)
tAAGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAAttt < 1:4304661/68‑1 (MQ=255)
tAAGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTccc < 1:3418220/71‑1 (MQ=255)
tAAGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTccc > 1:4519588/1‑71 (MQ=255)
aaGCCTGAATCTTGCCTGTGTATACATCACCCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTccc > 1:1068702/1‑70 (MQ=255)
aGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAAttt > 1:1222365/1‑66 (MQ=255)
aGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTcccc < 1:132765/70‑1 (MQ=255)
aGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTcccc < 1:2978461/70‑1 (MQ=255)
aGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTCCCCCa > 1:1650069/1‑71 (MQ=255)
gCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCAt > 1:3676580/1‑71 (MQ=255)
cTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTa < 1:712341/71‑1 (MQ=255)
cTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTa < 1:3014583/71‑1 (MQ=255)
tGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAAttt > 1:3443771/1‑62 (MQ=255)
gAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGa > 1:3332313/1‑71 (MQ=255)
aaTCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCa > 1:1631539/1‑65 (MQ=255)
aTCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCAt > 1:2598405/1‑65 (MQ=255)
gCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCatat > 1:1084011/1‑70 (MQ=255)
tgtgTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCatat < 1:4024308/67‑1 (MQ=255)
gtgtATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTCCCCCATTAGACCAtatttat > 1:2719858/1‑70 (MQ=255)
tgtATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCAtatttat < 1:3533081/69‑1 (MQ=255)
tgtATACATCAACCGGATATCCCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATatttattt < 1:2849888/71‑1 (MQ=255)
ataCATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGAcc > 1:4299541/1‑58 (MQ=255)
ataCATCAACCCGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGAcc > 1:2804281/1‑58 (MQ=255)
aCATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATg > 1:936554/1‑70 (MQ=255)
cATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCAtattt < 1:3561238/61‑1 (MQ=255)
cATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGt > 1:3176170/1‑70 (MQ=255)
aTCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATAtttatttt > 1:2075249/1‑65 (MQ=255)
tCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAg < 1:3393894/71‑1 (MQ=255)
tCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTCCCCCATTAGACCATATTTATTTTATGTCAg < 1:3125892/71‑1 (MQ=255)
aaCCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGc > 1:3304724/1‑71 (MQ=255)
aaCCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGc > 1:3218439/1‑71 (MQ=255)
aCCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGc > 1:3648854/1‑70 (MQ=255)
aCCGGATATCGCATCCGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCg < 1:2739697/71‑1 (MQ=255)
cGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTg < 1:3524653/71‑1 (MQ=255)
cGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTg < 1:3722972/71‑1 (MQ=255)
ggATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATAtttatttta > 1:2610662/1‑59 (MQ=255)
tCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGtt < 1:1664259/70‑1 (MQ=255)
cATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCata < 1:1879923/42‑1 (MQ=255)
aTCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTcgc < 1:4501283/71‑1 (MQ=255)
tGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCgg > 1:1443209/1‑70 (MQ=255)
tGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCgg > 1:1182330/1‑70 (MQ=255)
tGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCgg > 1:1500771/1‑70 (MQ=255)
gTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGtt < 1:1444489/62‑1 (MQ=255)
ttCCCTCTCCACGAGAAATTTCCCCATTAGACCAtatt < 1:373503/38‑1 (MQ=255)
ttCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTcgcg < 1:2390714/67‑1 (MQ=255)
ttCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGt < 1:717461/69‑1 (MQ=255)
tCCCTCTCCACGTGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAg > 1:1967328/1‑71 (MQ=255)
tCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGt > 1:1632629/1‑47 (MQ=255)
cccTCTCCACGAGAAATTTCCCCATTAGACCATatttattt > 1:3433892/1‑41 (MQ=255)
cccTCTCCACGAGAAATTTCCCCATTAGACCATAtttattttat > 1:1883678/1‑44 (MQ=255)
cccTCTCCACGAGAAATTTCCCCATTAGACCATAtttattttat > 1:2254933/1‑44 (MQ=255)
ccTCTCCACGAGAAATTTCCCCATTAGACCAtatttatt < 1:328881/39‑1 (MQ=255)
ctctCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGt < 1:147245/65‑1 (MQ=255)
tctcCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATc > 1:1415637/1‑71 (MQ=255)
tctcCACGAGAAATTCCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAg < 1:2539332/67‑1 (MQ=255)
ctcCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATc > 1:3966946/1‑70 (MQ=255)
ccACGAGAAATTTCCCCATTAGACCATAtttatttt < 1:4599654/36‑1 (MQ=255)
aCGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCg > 1:338590/1‑44 (MQ=255)
cGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCcagg > 1:4496178/1‑69 (MQ=255)
gagaAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCcaggca < 1:2893335/70‑1 (MQ=255)
agaAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCcaggcagg < 1:1585642/71‑1 (MQ=255)
aaaTTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGttt < 1:1540038/47‑1 (MQ=255)
aaTTCCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCCAGGCAGGAAc < 1:2750746/71‑1 (MQ=255)
aTTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCCAGGCAGGAACt > 1:1310594/1‑71 (MQ=255)
tttCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCcagg < 1:904327/62‑1 (MQ=255)
tttCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCCAGGCAGGAACTc < 1:4165430/71‑1 (MQ=255)
tttCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCCAGGCAGGAACTc < 1:1879793/71‑1 (MQ=255)
ttCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTc > 1:3038262/1‑45 (MQ=255)
|
GATAAGCCTGAATCTTGCCTGTGTATACATCAACCGGATATCGCATCTGTTCCCTCTCCACGAGAAATTTCCCCATTAGACCATATTTATTTTATGTCAGGCGTGCTGTTTTCGCGGTAAGTATCCAGGCAGGAACTC > W3110S.gb/3533814‑3533951
|
| 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
