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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,186,703 |
T→C |
F216F (TTT→TTC) |
yqiG → |
predicted outer membrane usher protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,186,703 | 0 | T | C | 76.7%
| 116.9
/ 33.5
| 61 | F216F (TTT→TTC) | yqiG | predicted outer membrane usher protein |
| Reads supporting (aligned to +/- strand): ref base T (8/6); new base C (21/25); total (30/31) |
| Fisher's exact test for biased strand distribution p-value = 5.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 |
CGTACTGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAC > W3110S.gb/3186638‑3186766
|
cGTACTGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCcgcg < 1:400561/71‑1 (MQ=255)
cTGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:2868943/1‑71 (MQ=255)
cTGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:1068512/1‑71 (MQ=255)
tGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCcgcg < 1:1863192/66‑1 (MQ=255)
tGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCcgcg < 1:1679566/66‑1 (MQ=255)
tGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCcgcg < 1:916947/66‑1 (MQ=255)
tGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCcgcg < 1:1263814/66‑1 (MQ=255)
aTTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGtattta < 1:3457350/70‑1 (MQ=255)
aTTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGta > 1:1797393/1‑66 (MQ=255)
ttACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGTCCAACCTGGATTTCCCGCGtattta < 1:2462304/69‑1 (MQ=255)
tACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTatttattt > 1:262700/1‑71 (MQ=255)
aCCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGtatttatt > 1:768005/1‑69 (MQ=255)
aCCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGtatttatt > 1:2292120/1‑69 (MQ=255)
aCCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGtatttatt > 1:3301384/1‑69 (MQ=255)
aCCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGtatttatt > 1:1195366/1‑69 (MQ=255)
ccAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTg < 1:3971743/70‑1 (MQ=255)
ccAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGt < 1:435232/71‑1 (MQ=255)
ccAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGt < 1:118076/71‑1 (MQ=255)
ccAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGt < 1:3287714/71‑1 (MQ=255)
cAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTg < 1:475698/69‑1 (MQ=255)
gTACGATCAGTCATTTTACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTg < 1:3319342/67‑1 (MQ=255)
cGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGcc > 1:444731/1‑71 (MQ=255)
cGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGcc > 1:2104628/1‑71 (MQ=255)
cGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGcc > 1:1219443/1‑71 (MQ=255)
tCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCaa > 1:225768/1‑71 (MQ=255)
tCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCaa > 1:938340/1‑71 (MQ=255)
tCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGccc > 1:709888/1‑65 (MQ=255)
tCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGccc > 1:1430498/1‑65 (MQ=255)
aTTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:267031/1‑49 (MQ=255)
aTTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:1006625/1‑49 (MQ=255)
aTTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:313412/1‑49 (MQ=255)
aTTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:3484828/1‑49 (MQ=255)
aTTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:3228019/1‑49 (MQ=255)
aTTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGtatt > 1:713633/1‑49 (MQ=255)
gaaaaGCCAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGt < 1:491758/43‑1 (MQ=39)
cAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCATCAATGAATGCAAaactaac > 1:1544397/1‑71 (MQ=255)
cAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaactaac > 1:3712872/1‑71 (MQ=255)
cAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaactaac < 1:1021861/71‑1 (MQ=255)
cAGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaactaac > 1:1755735/1‑71 (MQ=255)
cAGGCGACCAACCTGGATTTACCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaactaac > 1:3327853/1‑71 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:1094937/68‑1 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:1430027/68‑1 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:64203/68‑1 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:561972/68‑1 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:1489244/68‑1 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:2877944/68‑1 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:314864/68‑1 (MQ=255)
aGGCGACCAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAaacta < 1:3482452/68‑1 (MQ=255)
cAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGt > 1:2258079/1‑70 (MQ=255)
cAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGt > 1:428443/1‑70 (MQ=255)
cAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGt > 1:1528742/1‑70 (MQ=255)
cAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGt > 1:344368/1‑70 (MQ=255)
cAACCTGGATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGt > 1:642024/1‑70 (MQ=255)
cTGGATTTCCCGCGTATTTATTTGTTTCGCGCAATCCCAGCAATGAATGCAAaacta < 1:1440961/57‑1 (MQ=255)
gATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCACTAc < 1:1209581/69‑1 (MQ=255)
gATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAc < 1:1785409/69‑1 (MQ=255)
gATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAc < 1:3364687/69‑1 (MQ=255)
gATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAc < 1:3360002/69‑1 (MQ=255)
gATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAc < 1:1219324/69‑1 (MQ=255)
gATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAc < 1:3343112/69‑1 (MQ=255)
gATTTCCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAc < 1:1577497/69‑1 (MQ=255)
|
CGTACTGATTACCAGTACGATCAGTCATTTAACAATGGCAAAAGCCAGGCGACCAACCTGGATTTTCCGCGTATTTATTTGTTTCGCCCAATCCCAGCAATGAATGCAAAACTAACTATAGGTCAATAC > W3110S.gb/3186638‑3186766
|
| 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
