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 |
4,628,828 |
C→T |
8.4% |
*215* (TGA→TAA) |
ytjB ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,628,828 | 0 | C | T | 8.4%
| 182.0
/ 5.4
| 59 | *215* (TGA→TAA) | ytjB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (23/31); new base T (2/3); total (25/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01 |
CGTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATTGCT > W3110S.gb/4628763‑4628897
|
tggaaGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCActct < 1:1323987/68‑1 (MQ=255)
gTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCActct < 1:3602343/70‑1 (MQ=255)
gTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCActct > 1:2115380/1‑70 (MQ=255)
aaGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTTACTCtttt > 1:1061739/1‑71 (MQ=255)
aaGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCtttt > 1:2254113/1‑71 (MQ=255)
agagTCAGAGATGAGCTGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt < 1:2234133/71‑1 (MQ=255)
agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTACTGGGTTACTCttttt > 1:2666783/1‑71 (MQ=255)
agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt < 1:3438335/71‑1 (MQ=255)
agagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt < 1:1885416/71‑1 (MQ=255)
gagTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCttttt > 1:3498373/1‑70 (MQ=255)
gTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTtc < 1:109322/70‑1 (MQ=255)
gTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTtc > 1:4573244/1‑70 (MQ=255)
tCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTc < 1:4319793/58‑1 (MQ=255)
agaTGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTTACTCTTTTTTCTCGCtt < 1:2579012/71‑1 (MQ=255)
agaTGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCtt > 1:2286332/1‑71 (MQ=255)
gaTGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCttt > 1:3268295/1‑71 (MQ=255)
gaTGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCtt < 1:1702333/70‑1 (MQ=255)
aTGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTTACTCTTTTTTCTCGCttt < 1:1463777/70‑1 (MQ=255)
aGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcctc > 1:1353986/1‑71 (MQ=255)
tAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCa < 1:2312151/42‑1 (MQ=255)
tAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCg < 1:2435347/71‑1 (MQ=255)
tAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCg > 1:2405887/1‑71 (MQ=255)
aTGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGc < 1:1611602/71‑1 (MQ=255)
tgGACATAACGATTTCCTTTCTTGTAGTAATGGGTTACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCAc < 1:901840/70‑1 (MQ=255)
ggACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCAc < 1:4083031/69‑1 (MQ=255)
aaCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGttt > 1:1074513/1‑69 (MQ=255)
aaCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTg > 1:14258/1‑70 (MQ=255)
aaCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGc > 1:2302650/1‑71 (MQ=255)
aaCGATTTCCTTTCTTGTAGTAATGGGGCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGtt < 1:1287529/68‑1 (MQ=255)
aCGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTg > 1:1492215/1‑69 (MQ=255)
cGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTtc > 1:4391227/1‑38 (MQ=255)
tttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCa > 1:1850471/1‑57 (MQ=255)
ttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCgg > 1:1974938/1‑71 (MQ=255)
ttCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCgg > 1:3725544/1‑71 (MQ=255)
tCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTtcttcct > 1:2629472/1‑46 (MQ=255)
tCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCgg < 1:164324/70‑1 (MQ=255)
cTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGtt < 1:2086382/70‑1 (MQ=255)
tttCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTttcttc < 1:3030870/41‑1 (MQ=255)
tttCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTttcttc < 1:624688/41‑1 (MQ=255)
tttCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGttt > 1:4036221/1‑59 (MQ=255)
ttCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTATTCCTCTTCCGGCACCGGTTTGCTGGCGGTTaa > 1:4300417/1‑70 (MQ=255)
ctttagtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAg < 1:4376547/67‑1 (MQ=255)
tGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAgg > 1:2647609/1‑70 (MQ=255)
gtagtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGc > 1:4254644/1‑45 (MQ=255)
gtagtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGa < 1:4011778/70‑1 (MQ=255)
tagtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGaa < 1:4010166/70‑1 (MQ=255)
gtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAggg < 1:3667081/71‑1 (MQ=255)
gtaATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAgg < 1:4604924/70‑1 (MQ=255)
taATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCAc < 1:4075858/43‑1 (MQ=255)
taATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGc < 1:2810517/71‑1 (MQ=255)
taATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGc < 1:2976132/71‑1 (MQ=255)
taATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGc < 1:156571/71‑1 (MQ=255)
aTGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTgg < 1:3639678/52‑1 (MQ=255)
ggTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGtt > 1:1141158/1‑43 (MQ=255)
ggTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATtg < 1:2518446/71‑1 (MQ=255)
ggTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATtg > 1:3244787/1‑71 (MQ=255)
gTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTa < 1:3775445/54‑1 (MQ=255)
gTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATtgc < 1:1726146/71‑1 (MQ=255)
tCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTaa < 1:2346432/54‑1 (MQ=255)
tCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATtgct < 1:2816373/71‑1 (MQ=255)
cACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATtgct < 1:1355246/70‑1 (MQ=255)
|
CGTAAGAGTCAGAGATGAGCAGGCGTAATGTGGACATAACGATTTCCTTTCTTGTAGTAATGGGTCACTCTTTTTTCTCGCTTTCTTCCTCTTCCGGCACCGGTTTGCTGGCGGTTAACAGGAAGGGCGATTGCT > W3110S.gb/4628763‑4628897
|
| 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
