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 |
1,087,357 |
A→G |
47.2% |
G286G (GGT→GGC) |
sufS ← |
selenocysteine lyase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,087,357 | 0 | A | G | 47.2%
| 1.5
/ 60.1
| 70 | G286G (GGT→GGC) | sufS | selenocysteine lyase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (18/19); new base G (21/12); total (39/31) |
| Fisher's exact test for biased strand distribution p-value = 2.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.24e-01 |
TTCTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGT > minE/1087292‑1087422
|
ttCTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGAcc > 1:1971210/1‑68 (MQ=255)
ttCTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCa > 1:1247514/1‑69 (MQ=255)
ttCTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCa > 1:1991718/1‑69 (MQ=255)
cTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACTTACTCCAGCGCCGCGCCAAGACCAat < 1:2699208/69‑1 (MQ=255)
cTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAat < 1:2063945/69‑1 (MQ=255)
cTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAat < 1:2183758/69‑1 (MQ=255)
cTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAat < 1:1771701/69‑1 (MQ=255)
cATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAATACCAATGATGc > 1:2288325/1‑69 (MQ=255)
cTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGccccc > 1:1260866/1‑69 (MQ=255)
cTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGccccc > 1:1702736/1‑69 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:1845643/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:456891/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2167880/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2207943/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2560684/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:187646/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2581662/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:1736633/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2885617/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:3171479/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:1300905/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:967305/69‑1 (MQ=255)
cTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGt < 1:3201161/67‑1 (MQ=255)
aTGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTg < 1:2471674/69‑1 (MQ=255)
aTGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTg < 1:2641708/69‑1 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTGTTgg > 1:3261112/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2022915/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2127022/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:1981867/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2841767/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2365854/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:1905795/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:708081/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:1849093/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:546436/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:3327917/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:80228/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTg > 1:1989057/1‑68 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTg > 1:899167/1‑68 (MQ=255)
gTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAat < 1:2207896/51‑1 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAat > 1:3374284/1‑50 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAat > 1:165908/1‑50 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTggg > 1:293727/1‑68 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTggg > 1:1599803/1‑68 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTgg < 1:2766339/67‑1 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTgg < 1:198686/67‑1 (MQ=255)
attaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGgtgt < 1:1911358/69‑1 (MQ=255)
attaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGgtgt < 1:1255715/69‑1 (MQ=255)
attaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGgtg < 1:292250/68‑1 (MQ=255)
ttaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTa > 1:363924/1‑69 (MQ=255)
ttaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTa > 1:3320990/1‑69 (MQ=255)
ttaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTa > 1:980712/1‑69 (MQ=255)
ttaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTa > 1:1780484/1‑69 (MQ=255)
ttaAGCACCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTa > 1:442433/1‑69 (MQ=255)
aGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCa > 1:412356/1‑69 (MQ=255)
aGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCa > 1:2101926/1‑69 (MQ=255)
aCTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCAAACCGCCACggcg > 1:102034/1‑67 (MQ=255)
aCTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCAAACCGCCACggcg > 1:3345539/1‑67 (MQ=255)
aCTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCAAACCGCCACggcg > 1:2612804/1‑67 (MQ=255)
aCTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCAAACCGCCACggcg > 1:759155/1‑67 (MQ=255)
aCTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTg < 1:1621249/69‑1 (MQ=255)
aCTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTg < 1:3237951/69‑1 (MQ=255)
aCTCAAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCAAACCGCCACggcg > 1:1223514/1‑67 (MQ=255)
cTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGTTATTGGGTGTACCGGCTTCAAACCGCCATGGTGc > 1:2070141/1‑69 (MQ=255)
cTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTg < 1:2623709/68‑1 (MQ=255)
cTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGc > 1:826535/1‑69 (MQ=255)
cTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATT‑GGTGTACCGGCTTCAAACCGCCATGGTGCt > 1:188798/1‑69 (MQ=255)
aGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGt < 1:854177/68‑1 (MQ=255)
aGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGt < 1:522720/68‑1 (MQ=255)
aGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGt < 1:2344288/68‑1 (MQ=255)
|
TTCTGTTCATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGT > minE/1087292‑1087422
|
| 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
