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 |
1,087,366 |
G→A |
54.1% |
G283G (GGC→GGT) |
sufS ← |
selenocysteine lyase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,087,366 | 0 | G | A | 54.1%
| 4.6
/ 50.0
| 61 | G283G (GGC→GGT) | sufS | selenocysteine lyase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (13/15); new base A (21/12); total (34/27) |
| Fisher's exact test for biased strand distribution p-value = 2.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.28e-01 |
CATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTCA > minE/1087299‑1087429
|
cATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAATACCAATGATGc > 1:2288325/1‑69 (MQ=255)
cTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGccccc > 1:1260866/1‑69 (MQ=255)
cTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGccccc > 1:1702736/1‑69 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:967305/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2885617/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:3171479/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2581662/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2560684/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2207943/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:2167880/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:456891/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:187646/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:1845643/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:1300905/69‑1 (MQ=255)
cGGCAATGTTGTTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCgg < 1:1736633/69‑1 (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 > 1:1905795/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2365854/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:1849093/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:80228/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:546436/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2127022/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:3327917/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2022915/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:1981867/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:2841767/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTgg > 1:708081/1‑69 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTg > 1:899167/1‑68 (MQ=255)
tgttgtTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTg > 1:1989057/1‑68 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTggg > 1:293727/1‑68 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTggg > 1:1599803/1‑68 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTgg < 1:198686/67‑1 (MQ=255)
ttattaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTgg < 1:2766339/67‑1 (MQ=255)
attaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGgtgt < 1:1255715/69‑1 (MQ=255)
attaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGgtgt < 1:1911358/69‑1 (MQ=255)
attaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGgtg < 1:292250/68‑1 (MQ=255)
ttaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTa > 1:3320990/1‑69 (MQ=255)
ttaAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTa > 1:363924/1‑69 (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 > 1:759155/1‑67 (MQ=255)
aCTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCAAACCGCCACggcg > 1:3345539/1‑67 (MQ=255)
aCTCCAGCGCCGCGCCAAGGCCAATAATACCTCCGGTATTGGGCGTACCGGCTTCAAACCGCCACggcg > 1:2612804/1‑67 (MQ=255)
aCTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTg < 1:3237951/69‑1 (MQ=255)
aCTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTg < 1:1621249/69‑1 (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 < 1:2344288/68‑1 (MQ=255)
aGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGt < 1:522720/68‑1 (MQ=255)
aGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGt < 1:854177/68‑1 (MQ=255)
cAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCtt < 1:1227848/69‑1 (MQ=255)
atgatgCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTc > 1:2316863/1‑68 (MQ=255)
atgatgCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTc > 1:2527661/1‑68 (MQ=255)
atgatgCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTCa > 1:2729932/1‑69 (MQ=255)
atgatgCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTCa > 1:1899092/1‑69 (MQ=255)
atgatgCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTCa > 1:3278674/1‑69 (MQ=255)
gatgCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTCa > 1:743892/1‑67 (MQ=255)
|
CATACTCGGCTATGTTATTAAGCCCCAGCGCCGAAACATACTCCAGCGCCGCGCCAAGACCAATGATGCCCCCGGTATTGGGTGTACCGGCTTCAAACCGCCATGGTGCTTTGGTCCAGGTAGTGCCTTCA > minE/1087299‑1087429
|
| 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
