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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,834,094 |
A→G |
32.3% |
D65G (GAT→GGT) |
ygbM → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,834,094 | 0 | A | G | 32.3%
| 79.1
/ 58.0
| 65 | D65G (GAT→GGT) | ygbM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (20/24); new base G (14/7); total (34/31) |
| Fisher's exact test for biased strand distribution p-value = 1.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
ACCCTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGA > minE/1834024‑1834163
|
aCCCTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGgaga < 1:3315725/71‑1 (MQ=255)
cTGCAAATCCAAAAGCAACTGGAGCAAACCCATCTGACACTGGCGCTATTCAATACCGCTCCCGGAGatat > 1:2331865/1‑71 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTAtt < 1:3611625/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTAtt < 1:914718/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:2046742/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:2792581/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:1543667/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:1895877/69‑1 (MQ=255)
tCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCg < 1:2055442/71‑1 (MQ=255)
tCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCg < 1:2535731/71‑1 (MQ=255)
ccAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgg > 1:2255739/1‑71 (MQ=255)
aaaGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCggggg < 1:3521309/71‑1 (MQ=255)
aaaGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCggggg < 1:2273538/71‑1 (MQ=255)
cAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATg < 1:1836460/71‑1 (MQ=255)
cAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAAt < 1:3823521/70‑1 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa > 1:3292893/1‑71 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa > 1:3034428/1‑71 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa > 1:2038446/1‑71 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa > 1:959227/1‑71 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa > 1:1243599/1‑71 (MQ=255)
ggAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGAt > 1:397009/1‑71 (MQ=255)
gAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGAtt < 1:3777754/71‑1 (MQ=255)
gAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGAtt < 1:1716496/71‑1 (MQ=255)
gAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGAtt < 1:2517228/71‑1 (MQ=255)
aGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTa < 1:2558303/71‑1 (MQ=255)
aGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTa < 1:1425215/71‑1 (MQ=255)
cAAAACCATCTGACACTGGCGCTGTTCAATACGGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATc > 1:1696644/1‑71 (MQ=255)
aaaaCCATCTGACACTGGCGCAGTTCAATACCGCTCCCCGAGGTATAAATCCGGGGGAATGGGGATTATc > 1:1724596/1‑70 (MQ=255)
aaCCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGAGGGGGAATGGGGATTATCCGc < 1:2416559/71‑1 (MQ=255)
tCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATg < 1:952563/54‑1 (MQ=255)
tCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAAt < 1:692068/53‑1 (MQ=255)
tCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAAt < 1:2728382/53‑1 (MQ=255)
gACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTaa > 1:2141198/1‑39 (MQ=255)
acTGGCGCTGTTCAATACCGCTCCCGGAGATATTaa > 1:1999277/1‑36 (MQ=255)
acTGGCGCTGTTCAATACCGCTCCCGGAGATATTaa > 1:1757218/1‑36 (MQ=255)
acTGGCGCTGTTCAATACCGCTCCCGGAGATATTaa > 1:1356681/1‑36 (MQ=255)
acTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGa > 1:3159756/1‑52 (MQ=255)
acTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGa > 1:197672/1‑70 (MQ=255)
ggCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGt > 1:1322505/1‑70 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGa < 1:2140339/35‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGccc < 1:561831/52‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGccc < 1:1538587/52‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCAc < 1:182876/69‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCAc < 1:1528281/69‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCAc < 1:2897877/69‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGa < 1:947178/71‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGa < 1:2494029/71‑1 (MQ=255)
cAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCTGACGTGAGCACGAAg > 1:2415753/1‑71 (MQ=255)
cAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACg > 1:3206158/1‑60 (MQ=255)
cAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:3251547/1‑71 (MQ=255)
cAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:3477268/1‑71 (MQ=255)
cAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCACGGACGTGAGCACGAAg > 1:3147602/1‑71 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:1726625/1‑71 (MQ=255)
tACCGCTCCCGGAGATTTTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCAc < 1:2447540/64‑1 (MQ=255)
ccGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATc > 1:2117047/1‑40 (MQ=255)
ccGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATc > 1:718418/1‑40 (MQ=255)
ccGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATc > 1:1424494/1‑40 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcac > 1:388448/1‑69 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGcac > 1:2137130/1‑69 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCacac > 1:876619/1‑71 (MQ=255)
ccGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCacac > 1:2753752/1‑71 (MQ=255)
cccGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAg > 1:1840929/1‑54 (MQ=255)
cccGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACg > 1:2954791/1‑58 (MQ=255)
cccGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGa > 1:1890503/1‑59 (MQ=255)
cccGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGa > 1:2419710/1‑59 (MQ=255)
cccGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGa > 1:2834609/1‑59 (MQ=255)
cGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCAc < 1:617069/55‑1 (MQ=255)
gaTATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGa < 1:203511/71‑1 (MQ=255)
|
ACCCTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAGCACACGCAGACATCGA > minE/1834024‑1834163
|
| 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
