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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,584,438 |
T→C |
27.1% |
S48G (AGT→GGT) |
yjiW ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,584,438 | 0 | T | C | 27.1%
| 70.6
/ 31.8
| 48 | S48G (AGT→GGT) | yjiW | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (13/22); new base C (11/2); total (24/24) |
| Fisher's exact test for biased strand distribution p-value = 7.84e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.81e-01 |
TCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAGAA > W3110S.gb/4584380‑4584508
|
tCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGAc > 1:858796/1‑71 (MQ=255)
tCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGAc > 1:1055603/1‑71 (MQ=255)
tCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGAc > 1:641718/1‑71 (MQ=255)
tCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGAc > 1:2566113/1‑71 (MQ=255)
tCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGAc > 1:1462674/1‑71 (MQ=255)
tCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGAc > 1:3222364/1‑71 (MQ=255)
tCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGAc > 1:471481/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:1016973/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:2333807/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:1011726/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:1978467/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:2456963/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:3003177/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:531732/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:535439/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:1299232/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:668636/1‑71 (MQ=255)
aCTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACa > 1:831584/1‑71 (MQ=255)
cAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:2957095/70‑1 (MQ=255)
cAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:609646/70‑1 (MQ=255)
cAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:2426654/70‑1 (MQ=255)
cAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:2326535/70‑1 (MQ=255)
cAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:1876414/70‑1 (MQ=255)
cAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACATGACGGTTa < 1:667670/70‑1 (MQ=255)
cAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACCCGCATAACCGACGGTGACATGACGGTTa < 1:1650115/70‑1 (MQ=255)
aGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:2983195/69‑1 (MQ=255)
aTGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:1189155/63‑1 (MQ=255)
gAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTa < 1:1602676/56‑1 (MQ=255)
gCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCtt > 1:832385/1‑71 (MQ=255)
gCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCtt > 1:2059186/1‑71 (MQ=255)
gCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCtt > 1:1872021/1‑71 (MQ=255)
aTCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAAc < 1:2340040/70‑1 (MQ=255)
aTCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAAc < 1:1259280/70‑1 (MQ=255)
aTCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAAc < 1:543176/70‑1 (MQ=255)
aTCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAAc < 1:1542872/70‑1 (MQ=255)
gCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTtgtg > 1:2205412/1‑68 (MQ=255)
gCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCaa > 1:876971/1‑71 (MQ=255)
gCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCaa > 1:1215997/1‑71 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:1334291/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:3269341/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:1746100/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:2982902/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:2817146/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:1962380/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:801199/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:2350998/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:1030287/71‑1 (MQ=255)
aCTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAg < 1:2166158/71‑1 (MQ=255)
tCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAGaa > 1:3298837/1‑71 (MQ=255)
tCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAGaa > 1:713652/1‑71 (MQ=255)
tCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAGaa > 1:763278/1‑71 (MQ=255)
tCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAGaa > 1:1163010/1‑71 (MQ=255)
tCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAGa > 1:817540/1‑70 (MQ=255)
|
TCCAGCCACTGACCTTTCAGGGTGATGGCGGGAATACGGCTGTAATCCGGGTAGCGACTCGCATAACCGACGGTGACATGACGGTTATTTGCCGGGGAGACTTCTGCTTCGAACGGTTGTGCAATAGAA > W3110S.gb/4584380‑4584508
|
| 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
