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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,259,237 |
G→A |
10.8% |
S613F (TCT→TTT) |
tdcE ← |
pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,259,237 | 0 | G | A | 10.8%
| 190.5
/ 11.5
| 65 | S613F (TCT→TTT) | tdcE | pyruvate formate‑lyase 4/2‑ketobutyrate formate‑lyase |
| Reads supporting (aligned to +/- strand): ref base G (28/29); new base A (4/3); total (32/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.82e-01 |
CGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAATTTTCTTCA > W3110S.gb/3259170‑3259306
|
cgcgAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAAAAg > 1:2145069/1‑71 (MQ=255)
cgcgAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAAAAg > 1:1938242/1‑71 (MQ=255)
aCGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGa > 1:808313/1‑69 (MQ=255)
cGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATa < 1:2924262/70‑1 (MQ=255)
cGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAAAAGTGATa < 1:3036283/70‑1 (MQ=255)
gtgtTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGt < 1:3034022/70‑1 (MQ=255)
ttCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAg > 1:1347236/1‑70 (MQ=255)
cGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGaa > 1:3192118/1‑56 (MQ=255)
cGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATc < 1:1912871/71‑1 (MQ=255)
cGGCGCGAAGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATc > 1:66305/1‑71 (MQ=255)
ggCGCTACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCg < 1:807962/71‑1 (MQ=255)
ggCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTaaaa > 1:1481/1‑55 (MQ=255)
ggCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAg < 1:847858/56‑1 (MQ=255)
ggCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAg < 1:2969618/56‑1 (MQ=255)
ggCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAAAAGTGATAGTCAGAATc > 1:1566787/1‑70 (MQ=255)
agcgcGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCg < 1:632086/70‑1 (MQ=255)
gcgcGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGa < 1:3432862/58‑1 (MQ=255)
gcgACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGa < 1:561125/69‑1 (MQ=255)
cgacgaCCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCg < 1:3326378/67‑1 (MQ=255)
acgacCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTggg < 1:2312995/71‑1 (MQ=255)
cgacCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGt < 1:347907/71‑1 (MQ=255)
gacCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTa < 1:74401/71‑1 (MQ=255)
ccGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAgg > 1:1573275/1‑71 (MQ=255)
cGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAgg > 1:4564942/1‑70 (MQ=255)
tCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGAc > 1:3334604/1‑71 (MQ=255)
ccGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGa > 1:3545860/1‑69 (MQ=255)
cGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATc > 1:585849/1‑55 (MQ=255)
cGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTggg > 1:980575/1‑62 (MQ=255)
cGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACgg > 1:169880/1‑71 (MQ=255)
cGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAggg < 1:2377998/64‑1 (MQ=255)
cGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAgg > 1:131499/1‑63 (MQ=255)
cGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAgg > 1:154810/1‑63 (MQ=255)
gTATTACCGGTTTTCTGGCCGTACACCACGTTAGaa < 1:2126616/36‑1 (MQ=255)
ttACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGAc < 1:3644380/51‑1 (MQ=255)
ttACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCg < 1:155517/71‑1 (MQ=255)
aCCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGaa > 1:444483/1‑44 (MQ=255)
ccGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATa < 1:184668/71‑1 (MQ=255)
ccGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGCTAGGGACGGCGTTGCGATa < 1:3841607/71‑1 (MQ=255)
ccGGTTTTCTGGCCGTACACCACGTTAAAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGAt < 1:2541551/70‑1 (MQ=255)
ggTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCg > 1:1419061/1‑61 (MQ=255)
gTTTTCTGGCCGTACACCACGTTAGAAGTGATAGGCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGt < 1:611177/71‑1 (MQ=255)
ttttCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGtt < 1:711161/71‑1 (MQ=255)
ttCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTgg > 1:2725093/1‑71 (MQ=255)
tCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTgg > 1:2058033/1‑70 (MQ=255)
tCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTgg < 1:2317649/70‑1 (MQ=255)
cTGGCCTTACACCACGTTATAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGtt < 1:2717938/67‑1 (MQ=255)
gCCGTACACCACGTTAGAAGTCATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCa < 1:4189793/68‑1 (MQ=255)
ccGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAgg < 1:3033317/61‑1 (MQ=255)
ccGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAgcgc > 1:3315082/1‑71 (MQ=255)
cGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAg < 1:1136754/59‑1 (MQ=255)
gTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCtt > 1:744044/1‑71 (MQ=255)
tACACCACGTTAGAAGTGATAGTCAGAATCGACTg > 1:3443269/1‑35 (MQ=255)
caccacGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGAt > 1:693623/1‑53 (MQ=255)
caccacGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAg > 1:3065142/1‑63 (MQ=255)
caccacGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTaa < 1:1828131/71‑1 (MQ=255)
caccacGTTAAAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCt > 1:4113023/1‑67 (MQ=255)
ccacGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAAtt < 1:3829206/71‑1 (MQ=255)
acGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGtt < 1:3075266/54‑1 (MQ=255)
acGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAAttt > 1:3269375/1‑70 (MQ=255)
cGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTg > 1:3932308/1‑44 (MQ=255)
cGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATa > 1:3773618/1‑49 (MQ=255)
cGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATa > 1:3452584/1‑49 (MQ=255)
cGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAATTttc > 1:4602791/1‑71 (MQ=255)
gTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAATTttct < 1:719681/71‑1 (MQ=255)
ttAAAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAATTttctt < 1:1295317/71‑1 (MQ=255)
aGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAATTTTCTTCa > 1:66667/1‑71 (MQ=255)
|
CGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGTGATAGTCAGAATCGACTGGGTAGGGACGGCGTTGCGATAGGTTGGCAGCGCTTTAATTTTCTTCA > W3110S.gb/3259170‑3259306
|
| 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
