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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,989,906 |
A→G |
8.1% |
intergenic (+250/‑18) |
ygeF → / → ygeG |
hypothetical protein/predicted chaperone |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,989,906 | 0 | A | G | 8.1%
| 159.0
/ 6.7
| 62 | intergenic (+250/‑18) | ygeF/ygeG | hypothetical protein/predicted chaperone |
| Reads supporting (aligned to +/- strand): ref base A (34/23); new base G (2/3); total (36/26) |
| Fisher's exact test for biased strand distribution p-value = 6.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.32e-01 |
CTCATAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATGGGCA > W3110S.gb/2989836‑2989971
|
cTCATAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGaca < 1:978029/71‑1 (MQ=255)
aTAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGacac < 1:2624044/69‑1 (MQ=255)
aTAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACAt < 1:1681047/71‑1 (MQ=255)
aTTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATca > 1:2677340/1‑70 (MQ=255)
tttAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACGCATcaca < 1:1983744/71‑1 (MQ=255)
tttAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATcaca < 1:1119799/71‑1 (MQ=255)
aaaGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGaa < 1:1501426/71‑1 (MQ=255)
aaGATAAATATAAAAATATCAATGAGTCAATCTATAATAATTTGGCATCACGAGACACATCACAGAGGaa < 1:619401/70‑1 (MQ=255)
aaGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGaa > 1:2645135/1‑70 (MQ=255)
gATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAatat < 1:27154/71‑1 (MQ=255)
gATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAatat < 1:1912563/71‑1 (MQ=255)
aTAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAatat > 1:591958/1‑70 (MQ=255)
tataAAAATATCAATGAGTCAATCAATAATATTTTGGCATCACGAGACACATcac < 1:2249862/55‑1 (MQ=255)
ataAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACag > 1:1449042/1‑56 (MQ=255)
taAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGc > 1:193137/1‑70 (MQ=255)
aaaaTATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAatat > 1:900848/1‑61 (MQ=255)
tatCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACAt < 1:589461/44‑1 (MQ=255)
tatCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATg < 1:2763905/61‑1 (MQ=255)
tatCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATg < 1:2130279/61‑1 (MQ=255)
tCAATGAGTCAATCAATAATAATTTGGCATCACGAGacac < 1:1843725/40‑1 (MQ=255)
tCAATGAGTCAATCAATAATAATTTGGCATCACGAGacac < 1:1151983/40‑1 (MQ=255)
tCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAg > 1:1319493/1‑61 (MQ=255)
tCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAAc > 1:1462383/1‑70 (MQ=255)
aaTGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACaa < 1:1378677/70‑1 (MQ=255)
gAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTg > 1:1293979/1‑70 (MQ=255)
gAGTCAATCAATAATAATTTGGCATAACGAGACACATcac > 1:2595386/1‑40 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAAtt > 1:21710/1‑68 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGa > 1:1590126/1‑70 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGa < 1:2668621/70‑1 (MQ=255)
aGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGa > 1:805525/1‑70 (MQ=255)
gTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGaaa < 1:2678225/71‑1 (MQ=255)
gTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGaaa < 1:729195/71‑1 (MQ=255)
aatcaatAATAATTTGGCATCACGAGACACATcac > 1:2563536/1‑35 (MQ=255)
aatcaatAATAATTTGGCATCACGAGACACATCACAGAGGaa > 1:880127/1‑42 (MQ=255)
aatcaatAATAATTTGGCATCACGAGACACATCACAGAGGaa > 1:2038760/1‑42 (MQ=255)
tcaatAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACaa > 1:302019/1‑60 (MQ=255)
tcaatAATAATTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACaa > 1:2345611/1‑60 (MQ=255)
tcaatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTc < 1:2125600/71‑1 (MQ=255)
caatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTc > 1:1521907/1‑70 (MQ=255)
caatAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATAAGCACAGAAACAATTGAAATAtt > 1:2237598/1‑69 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAAtt > 1:1951688/1‑60 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaa > 1:2364026/1‑71 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaa > 1:1378263/1‑71 (MQ=255)
aataataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaa > 1:553100/1‑71 (MQ=255)
aataataatTTGGCATCACGAGACACAT‑‑CAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaat > 1:155814/1‑70 (MQ=255)
ataataatTTGGCATCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaat < 1:689509/71‑1 (MQ=255)
ataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGcaca > 1:235504/1‑47 (MQ=255)
ataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaataa > 1:2609937/1‑70 (MQ=255)
ataatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaataa > 1:2212336/1‑70 (MQ=255)
taatTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGa < 1:1855355/57‑1 (MQ=255)
atTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGt < 1:2716460/71‑1 (MQ=255)
ttGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgg > 1:867111/1‑70 (MQ=255)
tGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgat > 1:1150084/1‑71 (MQ=255)
gCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACa < 1:2008697/45‑1 (MQ=255)
gCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACa < 1:2704891/45‑1 (MQ=255)
gCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:485661/70‑1 (MQ=255)
gCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:2305192/70‑1 (MQ=255)
gCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGtgatg < 1:2295848/70‑1 (MQ=255)
tCACGAGACGCATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCaat < 1:654596/57‑1 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACa > 1:13705/1‑40 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAAtt > 1:869065/1‑43 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAata > 1:770275/1‑49 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGaa > 1:810306/1‑67 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGaa > 1:1967334/1‑67 (MQ=255)
aCGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATggg > 1:792731/1‑71 (MQ=255)
gagaCACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATGGGCa < 1:1940298/71‑1 (MQ=255)
|
CTCATAATTTAAAAAAGATAAATATAAAAATATCAATGAGTCAATCAATAATAATTTGGCATCACGAGACACATCACAGAGGAATATTATGAGCACAGAAACAATTGAAATATTCAATAATAGTGATGAATGGGCA > W3110S.gb/2989836‑2989971
|
| 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
