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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,392,399 |
A→G |
42.3% |
R117R (CGT→CGC) |
recQ ← |
ATP‑dependent DNA helicase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,392,399 | 0 | A | G | 42.3%
| 11.7
/ 37.1
| 52 | R117R (CGT→CGC) | recQ | ATP‑dependent DNA helicase |
| Reads supporting (aligned to +/- strand): ref base A (7/23); new base G (13/9); total (20/32) |
| Fisher's exact test for biased strand distribution p-value = 1.14e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.89e-01 |
GAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTCGCGGGTTTGCGTCGAG > minE/2392356‑2392462
|
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:3230051/68‑1 (MQ=255)
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:1922180/68‑1 (MQ=255)
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:1530825/68‑1 (MQ=255)
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:429842/68‑1 (MQ=255)
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:1267342/68‑1 (MQ=255)
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:386287/68‑1 (MQ=255)
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:1165246/68‑1 (MQ=255)
gAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:1072307/68‑1 (MQ=255)
aaaGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:1161409/67‑1 (MQ=255)
gTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGtcat < 1:3134855/69‑1 (MQ=255)
gTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGtcat < 1:2125211/69‑1 (MQ=255)
gTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGtcat < 1:829647/69‑1 (MQ=255)
gTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGtcat < 1:582400/69‑1 (MQ=255)
gTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGtcat < 1:1834088/69‑1 (MQ=255)
aTCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGtcat < 1:2966266/66‑1 (MQ=255)
gCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCTGTGCGGCAGCCTGTCATCACTTCa < 1:2667319/68‑1 (MQ=255)
gCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCa < 1:1374844/68‑1 (MQ=255)
aTCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGt < 1:1898191/69‑1 (MQ=255)
gTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCt < 1:1521219/47‑1 (MQ=255)
ccGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGtt > 1:103139/1‑60 (MQ=255)
ccGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTcgc > 1:1839030/1‑69 (MQ=255)
ccGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTcg > 1:1438693/1‑68 (MQ=255)
ggCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGtcat < 1:3183976/45‑1 (MQ=255)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:625862/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:1709328/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:850148/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:2216265/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:2297142/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:533546/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:2469293/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:125194/44‑1 (MQ=37)
taAAGCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTc < 1:1051625/44‑1 (MQ=37)
taAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTg < 1:3291360/53‑1 (MQ=255)
taAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTg < 1:1027922/53‑1 (MQ=255)
taAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTg < 1:3150245/53‑1 (MQ=255)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:932623/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:3272475/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:915762/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:446186/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:2834064/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:2637894/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:2300373/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:2073011/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:1773536/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:1663919/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:166365/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:1549638/1‑43 (MQ=37)
gCAGGCGGATTTGCCCGGTGCGGCAGCCTGTCATTACTTCAAgc > 1:1199863/1‑43 (MQ=37)
cAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTCGCGGGTTTGCGTCGa > 1:2872380/1‑66 (MQ=255)
cAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTCGCGGGTTTGCGTCGAg > 1:3048752/1‑67 (MQ=255)
cAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTCGCGGGTTTGCGTCGAg > 1:3283738/1‑67 (MQ=255)
cAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTCGCGGGTTTGCGTCGAg > 1:2780692/1‑67 (MQ=255)
|
GAAAGTTATCCAGCATCAGGCGTTCCGGGGCGATATAAAGCAGACGAATTTGCCCGGTGCGGCAGCCTGTCATCACTTCAAGTTGCTGTTCGCGGGTTTGCGTCGAG > minE/2392356‑2392462
|
| 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
