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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
335,162 |
G→A |
78.3% |
G130G (GGC→GGT) |
ybaK ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 335,162 | 0 | G | A | 78.3%
| 116.7
/ 32.0
| 60 | G130G (GGC→GGT) | ybaK | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (5/8); new base A (17/30); total (22/38) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
AAATTTGGCATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCGCCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTGGCAGACGT > minE/335096‑335222
|
aaaTTTGGCATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGccaccg > 1:2195544/1‑70 (MQ=255)
gCATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCTATATCCAGTCCGCGCTTGCCACCGGAAACAt < 1:2608908/70‑1 (MQ=255)
gCATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCGCCGGAAACATa < 1:2166512/71‑1 (MQ=255)
gCATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACAt < 1:1219997/70‑1 (MQ=255)
gCATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACAt < 1:354985/70‑1 (MQ=255)
cATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCGCCGGAAACATa > 1:4053717/1‑70 (MQ=255)
cATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCGCCGGAAACATa > 1:735941/1‑70 (MQ=255)
tCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAAt < 1:2848182/71‑1 (MQ=255)
tCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAAt < 1:2924940/71‑1 (MQ=255)
tCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAAt < 1:2959134/71‑1 (MQ=255)
tCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAAt < 1:3297988/71‑1 (MQ=255)
tCGAGGATCTTTGCCAGATCGCCTGACGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAAt < 1:1138807/71‑1 (MQ=255)
aTCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGaa < 1:61388/57‑1 (MQ=255)
tGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAAt < 1:2532597/70‑1 (MQ=255)
tGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAAt < 1:3610426/70‑1 (MQ=255)
tGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAAt < 1:3178271/70‑1 (MQ=255)
gCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAAtt < 1:1378834/70‑1 (MQ=255)
gCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAAtt < 1:3481334/70‑1 (MQ=255)
ccAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCt < 1:1803517/71‑1 (MQ=255)
ccAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCt < 1:305597/71‑1 (MQ=255)
cAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCtt < 1:166438/71‑1 (MQ=255)
cAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCtt < 1:180308/71‑1 (MQ=255)
gATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCGCCGGAAACATAAATAGTGGCAAATTCTtgt < 1:1450490/71‑1 (MQ=255)
cGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:3282782/1‑56 (MQ=255)
cGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:156035/1‑56 (MQ=255)
gCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCgg > 1:3481094/1‑71 (MQ=255)
gCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCgg > 1:1205851/1‑71 (MQ=255)
gccgccAGTTCGATATCCATTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTc < 1:1421727/59‑1 (MQ=255)
gccgccAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTc < 1:442779/59‑1 (MQ=255)
gccgccAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTc < 1:3427281/59‑1 (MQ=255)
ccgccAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAg > 1:87097/1‑48 (MQ=255)
ccgccAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAg > 1:3260895/1‑48 (MQ=255)
ccgccAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAg > 1:843015/1‑48 (MQ=255)
ccgccAGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTc < 1:3218345/58‑1 (MQ=255)
aGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGAt < 1:462743/71‑1 (MQ=255)
aGTTCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGAt < 1:1674630/71‑1 (MQ=255)
gTTCGATATCCAGTCCGCGCTTGCCGCCGGAAACATAAATAGTGGCAAATTc < 1:2464489/52‑1 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCGCCGGAAACATa < 1:286851/36‑1 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCGCCGGAAACATa < 1:574340/36‑1 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:3797925/1‑43 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:1249907/1‑43 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:1789061/1‑43 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:405130/1‑43 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:1881157/1‑43 (MQ=255)
ttCGATATCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTg > 1:188440/1‑43 (MQ=255)
atatCCAGTCCGCGCTTGCCGCCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCg < 1:3982755/70‑1 (MQ=255)
atCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTg > 1:3326903/1‑71 (MQ=255)
tCCAGTCCGCGCTTGCCGCCGGAAACATAAATAGt < 1:1441922/35‑1 (MQ=255)
tCCAGTCCGCGCTTGCCGCCGGAAACATAAATAGt < 1:2511775/35‑1 (MQ=255)
tCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCg < 1:896342/67‑1 (MQ=255)
tCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCg < 1:1746902/67‑1 (MQ=255)
tCCAGTCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGt < 1:1312870/68‑1 (MQ=255)
tCCGCGCTTGCCACCGGAAACATAAATAGTGGCAAAt < 1:335603/37‑1 (MQ=255)
tCCGCGCTTGCCACCGGAAAAATAAATAGTGGCAAAt < 1:3291729/37‑1 (MQ=38)
ccGCGCTTGCCACCGGAAACATAAATAGTGGCAAAt < 1:17040/36‑1 (MQ=255)
ccGCGCTTGCCACCGGAAACATAAATAGTGGCAAATTc > 1:2394663/1‑38 (MQ=255)
cgcgCTTGCCGCCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTGGc > 1:1420698/1‑65 (MQ=255)
cgcgCTTGCCGCCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTGGCAGACGt > 1:2693409/1‑71 (MQ=255)
cgcgCTTGCCGCCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTGGCAGACGt > 1:2344861/1‑71 (MQ=255)
cTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTGGCAGAc > 1:1972735/1‑65 (MQ=255)
cTTGCCACCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTGGCAGAc > 1:1454264/1‑65 (MQ=255)
|
AAATTTGGCATCGAGGATCTTTGCCAGATCGCCTGCCGCCAGTTCGATATCCAGTCCGCGCTTGCCGCCGGAAACATAAATAGTGGCAAATTCTTGTGCGGGGGCGTCGATAATCGTTGGCAGACGT > minE/335096‑335222
|
| 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
