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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,225,948 |
G→C |
21.6% |
V129V (GTG→GTC) |
dusB → |
tRNA‑dihydrouridine synthase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,225,948 | 0 | G | C | 21.6%
| 177.2
/ 46.3
| 88 | V129V (GTG→GTC) | dusB | tRNA‑dihydrouridine synthase B |
| Reads supporting (aligned to +/- strand): ref base G (28/41); new base C (13/6); total (41/47) |
| Fisher's exact test for biased strand distribution p-value = 3.94e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.70e-01 |
ATCGCAAGCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAACTGCGAA > minE/2225878‑2226017
|
aTCGCAAGCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTg < 1:3783823/71‑1 (MQ=255)
tCGCAAGCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTg > 1:371905/1‑70 (MQ=255)
aaGCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGc < 1:1197369/71‑1 (MQ=255)
aaGCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGc < 1:824064/71‑1 (MQ=255)
aaGCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGc < 1:2968828/71‑1 (MQ=255)
gCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGc < 1:3736900/69‑1 (MQ=255)
tCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTg > 1:249402/1‑71 (MQ=255)
gCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGa < 1:846568/71‑1 (MQ=255)
aGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTg < 1:149032/67‑1 (MQ=255)
aGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTg < 1:3351605/67‑1 (MQ=255)
ggTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGt < 1:1773993/71‑1 (MQ=255)
tCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTcc > 1:474043/1‑71 (MQ=255)
cAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCt > 1:1836973/1‑71 (MQ=255)
aGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCt < 1:1100646/70‑1 (MQ=255)
cccTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGaa > 1:3746082/1‑52 (MQ=255)
tctTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGAAGTTc < 1:1390836/63‑1 (MQ=255)
ttGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAg > 1:844470/1‑52 (MQ=255)
ttGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGa > 1:109602/1‑56 (MQ=255)
ttGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCaa > 1:737736/1‑47 (MQ=255)
ttGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCaa > 1:4067667/1‑47 (MQ=255)
tGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTg < 1:3999125/44‑1 (MQ=255)
tGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGt < 1:3767477/58‑1 (MQ=255)
tGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCt > 1:3194082/1‑70 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTg > 1:2407788/1‑70 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTg < 1:3061687/70‑1 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTg > 1:4089697/1‑70 (MQ=255)
aGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGc < 1:302763/46‑1 (MQ=255)
aGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTg < 1:4049192/68‑1 (MQ=255)
aGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTg < 1:3317275/68‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGa < 1:3367987/50‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTa < 1:3619858/61‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATg < 1:563923/43‑1 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGATTGCAGTGGACGTTCCTGTTACCCTGAAGAtt < 1:1251302/70‑1 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTa < 1:603562/59‑1 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTa < 1:904980/59‑1 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTc > 1:552476/1‑71 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTc > 1:3070399/1‑71 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGt > 1:1257279/1‑57 (MQ=255)
ccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCg > 1:961502/1‑71 (MQ=255)
cGGATGTCGTTAAATCGATCCTTACCGAGGTCGTg < 1:2527596/35‑1 (MQ=255)
cGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGa < 1:978580/66‑1 (MQ=255)
cGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGc < 1:480107/71‑1 (MQ=255)
ggATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGc > 1:1019297/1‑70 (MQ=255)
gATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGc > 1:2336690/1‑38 (MQ=255)
gATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGaa < 1:862912/62‑1 (MQ=255)
gATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGaa < 1:1559226/62‑1 (MQ=255)
aTGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCGTGAAGATTCGCAcc > 1:3568028/1‑71 (MQ=255)
tGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTAcc > 1:2867657/1‑55 (MQ=255)
tGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCg > 1:872906/1‑71 (MQ=255)
tCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGtt < 1:3296814/44‑1 (MQ=255)
tCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGtt < 1:4118384/44‑1 (MQ=255)
tCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCg < 1:2935189/69‑1 (MQ=255)
tCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCg < 1:638173/69‑1 (MQ=255)
tCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGc < 1:2194316/71‑1 (MQ=255)
tCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGc > 1:1892846/1‑71 (MQ=255)
cGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCt > 1:4072572/1‑71 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGa < 1:26493/55‑1 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg < 1:371425/71‑1 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg < 1:2442608/71‑1 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGATg > 1:1704525/1‑71 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGtt > 1:834632/1‑48 (MQ=255)
tAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg > 1:2925710/1‑69 (MQ=255)
aaaTCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTggg > 1:902497/1‑70 (MQ=255)
aaaTCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTggg < 1:948761/70‑1 (MQ=255)
aaaTCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTggg > 1:1040573/1‑70 (MQ=255)
aaTCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGc < 1:4113760/70‑1 (MQ=255)
cGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTAcc > 1:1707126/1‑44 (MQ=255)
cGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGa < 1:861811/51‑1 (MQ=255)
cGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCg > 1:2639476/1‑71 (MQ=255)
cGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCg > 1:2734110/1‑71 (MQ=255)
gATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGa > 1:3753712/1‑50 (MQ=255)
gATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCgg < 1:4043621/71‑1 (MQ=255)
gATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCgg < 1:894718/71‑1 (MQ=255)
gATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCgg < 1:3449094/71‑1 (MQ=255)
gATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCg > 1:3700855/1‑70 (MQ=255)
aTCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGt < 1:706093/38‑1 (MQ=255)
tCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGt > 1:2208856/1‑37 (MQ=255)
tCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCAc > 1:2570900/1‑66 (MQ=255)
cTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGt < 1:1812174/35‑1 (MQ=255)
tACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAacac > 1:3741284/1‑70 (MQ=255)
tACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAaca > 1:3100097/1‑69 (MQ=255)
tACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACAcc > 1:759367/1‑71 (MQ=255)
aCCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCg > 1:3348407/1‑71 (MQ=255)
ccGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGt < 1:1447235/71‑1 (MQ=255)
ccGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGt < 1:3423814/71‑1 (MQ=255)
ccGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGt < 1:3193126/71‑1 (MQ=255)
cGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTa < 1:2980963/71‑1 (MQ=255)
tCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGAt < 1:3172347/37‑1 (MQ=255)
cGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGc > 1:2270427/1‑46 (MQ=255)
cGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAACTGc > 1:766059/1‑70 (MQ=255)
gTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAACTGCg > 1:1238930/1‑70 (MQ=255)
tGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAACTGCGaa < 1:3317308/71‑1 (MQ=255)
|
ATCGCAAGCTCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAACTGCGAA > minE/2225878‑2226017
|
| 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
