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 F28 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,192,987 |
G→A |
A490T (GCG→ACG) |
yqiK → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,192,987 | 0 | G | A | 90.6%
| 140.5
/ 5.2
| 53 | A490T (GCG→ACG) | yqiK | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/5); new base A (0/48); total (0/53) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.78e-01 |
TGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGC > W3110S.gb/3192928‑3193019
|
tGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCg < 1:892582/62‑1 (MQ=255)
tGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCg < 1:789873/62‑1 (MQ=255)
tGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCg < 1:2251253/62‑1 (MQ=255)
tGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCg < 1:29441/62‑1 (MQ=255)
tGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCg < 1:2373145/62‑1 (MQ=255)
cAGGTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTgggggc < 1:1969405/62‑2 (MQ=255)
gggcGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2021171/58‑1 (MQ=255)
ggTGGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2307232/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2199518/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2221971/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1001198/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2229821/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2302457/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:237299/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2375896/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2410766/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2487621/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2699843/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2889059/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:373670/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:512423/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:531079/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:679932/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:687253/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:748688/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1520762/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1006917/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1047558/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1097584/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1103906/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1182095/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1239652/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1346343/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1416300/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1434721/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2080745/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1536451/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1556065/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1575608/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1811641/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1866035/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1878631/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1916515/61‑1 (MQ=255)
ggTCGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGGGGGGGGc < 1:27939/61‑1 (MQ=255)
cGATGGGCTGAATCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1141657/58‑1 (MQ=255)
tGGGCTGAATCTTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2651013/55‑1 (MQ=255)
aTCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1570933/47‑1 (MQ=255)
aTCGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2340040/47‑1 (MQ=255)
tCGTGGTGGCGCTACGGGGGATGCAAACACGGGGAATGTGGGGGGc < 1:677614/46‑1 (MQ=255)
cGTGGTGGCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2355642/45‑1 (MQ=255)
tggtggCGCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1776202/43‑1 (MQ=37)
gtggcgCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:1747732/39‑1 (MQ=38)
ggggcgCTACGGGTGATGCAAACACGGGGAATGTGGGGGGc < 1:2843487/39‑1 (MQ=38)
|
TGAAGTCAATCGACGGTATCAAGATTATTCAGGTCGATGGTCTGAATCGTGGCGGCGCTGCGGGTGATGCAAACACGGGTAATGTGGGGGGC > W3110S.gb/3192928‑3193019
|
| 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
