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 |
|
A6 F28 I3 R2
|
24 |
47.7 |
2431847 |
96.1% |
2337004 |
60.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,910,326 |
(A)6→7 |
coding (1318/2697 nt) |
mgtA → |
magnesium transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,910,320 | 1 | . | A | 95.8%
| 145.9
/ 0.8
| 48 | coding (1312/2697 nt) | mgtA | magnesium transporter |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base A (25/21); total (26/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.65e-01 |
ACCTGCTCGATACAGCGGTGCTCGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑AAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGCAGA > minE/2910252‑2910381
|
aCCTGCTCGATACAGCGGTGCTCGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑aa < 1:571805/71‑1 (MQ=255)
aCCTGCTCGATACAGCGGTGCTCGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑a > 1:375135/1‑70 (MQ=255)
cTGCTCGATACAGCGGTGCTCGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑aaaa < 1:2050670/71‑1 (MQ=255)
tACAGCGGTGCTCGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATtgat < 1:1890619/71‑1 (MQ=255)
gCGGTGCTCGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATgaga < 1:329431/71‑1 (MQ=255)
cGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGttt > 1:951650/1‑71 (MQ=255)
cGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑AAAAAATTGATgag < 1:711640/61‑1 (MQ=255)
gAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑aaaaaaa > 1:757173/1‑52 (MQ=255)
aaGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTg < 1:1526244/70‑1 (MQ=255)
aGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGAt < 1:1222783/71‑1 (MQ=255)
tACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTc < 1:2027701/71‑1 (MQ=255)
aCGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGAtt > 1:85685/1‑58 (MQ=255)
aCGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTc > 1:502479/1‑70 (MQ=255)
cGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTc > 1:1941016/1‑69 (MQ=255)
ggATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGa > 1:1716900/1‑70 (MQ=255)
gATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGc > 1:2132949/1‑71 (MQ=255)
aaGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCg > 1:1969649/1‑71 (MQ=255)
aaGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCg > 1:1089646/1‑71 (MQ=255)
agagTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGc > 1:191199/1‑71 (MQ=255)
agagTCAGCGCGCTCGCTGGCCAGTC‑TTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGcc > 1:1320515/1‑71 (MQ=255)
agTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGAt > 1:1287417/1‑57 (MQ=255)
agTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑aaaaa < 1:1371360/35‑1 (MQ=255)
gTCAGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCg > 1:776275/1‑70 (MQ=255)
tCAGCGCGCTCGCTGGCCAGTCGTTGGC‑aaaaaaa < 1:1500272/35‑2 (MQ=255)
aGCGCGCTCGCTGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATg > 1:2358261/1‑71 (MQ=255)
gcgcTCGCTGGCCAGTCGTTGGCAAAAAAATtgatga < 1:1738458/37‑1 (MQ=38)
gcgcTCGCTGGCCAGTCGTTGGCAAAAAAATtgatga < 1:893390/37‑1 (MQ=38)
cgctcgctGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGAtt < 1:2008695/50‑1 (MQ=255)
ctcgctGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTc > 1:393288/1‑50 (MQ=255)
tcgctGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCggtgg > 1:1399870/1‑71 (MQ=255)
gctGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCggtg > 1:2006556/1‑68 (MQ=255)
gctGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCggtg > 1:1733195/1‑68 (MQ=255)
ctGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAg < 1:240052/71‑1 (MQ=255)
tGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCg < 1:2348237/56‑1 (MQ=255)
tGGCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTa > 1:407351/1‑69 (MQ=255)
gCCAGTCGTTGGCAAAAAAATTGCTGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGt < 1:75990/69‑1 (MQ=255)
gCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGt < 1:2221510/69‑1 (MQ=255)
gCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGt < 1:1503383/69‑1 (MQ=255)
gCCAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGt < 1:1374856/69‑1 (MQ=255)
ccAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGc < 1:2006125/71‑1 (MQ=255)
ccAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGc < 1:510057/71‑1 (MQ=255)
ccAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGc < 1:932274/71‑1 (MQ=255)
ccAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGc < 1:579879/71‑1 (MQ=255)
cAGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTgg > 1:347168/1‑69 (MQ=255)
aGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGc > 1:114966/1‑69 (MQ=255)
aGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGc > 1:470125/1‑69 (MQ=255)
aGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGCAg < 1:329985/71‑1 (MQ=255)
aGTCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGCAg < 1:237033/71‑1 (MQ=255)
aGTCGTTGGC‑AAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTc > 1:1218205/1‑56 (MQ=255)
tCGTTGGCAAAAAAATTGATGAGATTCCGTTTGAt < 1:2204041/35‑1 (MQ=38)
tCGTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGCAGa > 1:1191229/1‑70 (MQ=255)
gTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCgg > 1:947052/1‑48 (MQ=255)
gTTGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGa > 1:427905/1‑49 (MQ=255)
ttGGCAAAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATg > 1:1300745/1‑50 (MQ=255)
|
ACCTGCTCGATACAGCGGTGCTCGAAGGTACGGATGAAGAGTCAGCGCGCTCGCTGGCCAGTCGTTGGC‑AAAAAATTGATGAGATTCCGTTTGATTTCGAGCGTCGCCGGATGTCGGTGGTAGTGGCAGA > minE/2910252‑2910381
|
| 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
