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 F28 I1 R2
|
328 |
63.0 |
4687567 |
98.0% |
4593815 |
65.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
630,265 |
T→C |
C383C (TGT→TGC) |
cstA → |
carbon starvation protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 630,265 | 0 | T | C | 98.0%
| 169.1
/ ‑4.6
| 51 | C383C (TGT→TGC) | cstA | carbon starvation protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (25/25); minor base G (1/0); total (26/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
GCTTTATCGGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAGG > W3110S.gb/630198‑630327
|
gCTTTATCGGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCat > 1:4092012/1‑70 (MQ=255)
cTTTATCGGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCatca > 1:3827677/1‑71 (MQ=255)
cTTTATCGGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCatca > 1:3160188/1‑71 (MQ=255)
cTTTATCGGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCatca > 1:2264064/1‑71 (MQ=255)
ttATCGGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCatcatc > 1:4415050/1‑71 (MQ=255)
tACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCggg > 1:1312028/1‑71 (MQ=255)
tACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCggg > 1:2136511/1‑71 (MQ=255)
gTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCgtg < 1:3332086/71‑1 (MQ=255)
gTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCgtg < 1:2707558/71‑1 (MQ=255)
ggATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTa < 1:4473475/70‑1 (MQ=255)
tGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTAttt > 1:1900714/1‑70 (MQ=255)
tGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCAGGGCGTGTAtt > 1:31/1‑69 (MQ=255)
ttAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGc > 1:1150615/1‑71 (MQ=255)
ttAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGc > 1:3607811/1‑71 (MQ=255)
ttAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGc > 1:2024816/1‑71 (MQ=255)
ttAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGc > 1:1261737/1‑71 (MQ=255)
ttAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTAATTTg > 1:1474774/1‑70 (MQ=255)
aaTGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTAttt > 1:2802974/1‑66 (MQ=255)
tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATg < 1:4326785/71‑1 (MQ=255)
tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATg < 1:2707093/71‑1 (MQ=255)
tGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATg < 1:3046771/71‑1 (MQ=255)
ggAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATg < 1:798884/70‑1 (MQ=255)
gAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGa > 1:2080170/1‑70 (MQ=255)
aaTCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGa < 1:2101074/46‑1 (MQ=255)
aaTCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGa < 1:2665176/46‑1 (MQ=255)
aTCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTAttt > 1:1207193/1‑60 (MQ=255)
aTCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTTCCATGaa > 1:3420877/1‑69 (MQ=255)
tCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTa < 1:155179/56‑1 (MQ=255)
tCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTa < 1:1468678/56‑1 (MQ=255)
tCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATg < 1:3457725/66‑1 (MQ=255)
cTTCGTGGCGATTATGGCTCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGcc > 1:1788513/1‑71 (MQ=255)
cTTCGTGGCGATTATGGCGCTGGTTTCCTCCTGCATCATCGATCCGGGCGTGTATTTTTcc > 1:2828668/1‑61 (MQ=25)
cGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGccc < 1:1093948/69‑1 (MQ=255)
cGTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATAGATCCGGGCGTGTATTTTGCCATGAACAGccc < 1:1883934/69‑1 (MQ=255)
gTGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGAt < 1:2153917/71‑1 (MQ=255)
tGGCGATTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGc < 1:3425648/55‑1 (MQ=255)
gATTATGGCGCTGGTTTCCGCCTGCATCATAGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCgg < 1:1549784/71‑1 (MQ=255)
aTTATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCgg < 1:813524/70‑1 (MQ=255)
ttATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGaa < 1:2871852/55‑1 (MQ=255)
tATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTAttt > 1:3554165/1‑45 (MQ=255)
tATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGcc > 1:2842794/1‑49 (MQ=255)
tATGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGc > 1:227373/1‑71 (MQ=255)
tGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCt < 1:4595918/70‑1 (MQ=255)
tGGCGCTGGTTTCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTg < 1:1977126/71‑1 (MQ=255)
tCCGCCTGGATCATCGATCCGGGCGTGTATTTTGCCa > 1:4255184/1‑37 (MQ=255)
tCCGCCTGCATCATCGATCCGGGGGTGTATTTTGCCa > 1:3647908/1‑37 (MQ=38)
tCCGCCTGCATCATCGATCCGGGCGTGTATTTTGCCa > 1:2122313/1‑37 (MQ=255)
ccGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAgg < 1:2247330/70‑1 (MQ=255)
ccGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAgg < 1:246059/70‑1 (MQ=255)
ccGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAgg < 1:90984/70‑1 (MQ=255)
ccGCCTGCATCATCGATCCGGGCGTGTATTTTGCCATGAACACCCCGATGGCGGTGCTGGCTCCGGCAgg < 1:4618335/70‑1 (MQ=255)
|
GCTTTATCGGCTACGGTGGGATGTTAATGGAATCCTTCGTGGCGATTATGGCGCTGGTTTCCGCCTGTATCATCGATCCGGGCGTGTATTTTGCCATGAACAGCCCGATGGCGGTGCTGGCTCCGGCAGG > W3110S.gb/630198‑630327
|
| 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
