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 |
722,797 |
C→T |
20.9% |
T680T (ACG→ACA) |
kdpD ← |
fused sensory histidine kinase in two‑component regulatory system with KdpE |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 722,797 | 0 | C | T | 20.9%
| 88.2
/ 18.4
| 43 | T680T (ACG→ACA) | kdpD | fused sensory histidine kinase in two‑component regulatory system with KdpE |
| Reads supporting (aligned to +/- strand): ref base C (17/17); new base T (6/3); total (23/20) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.35e-01 |
ATCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAGGGC > W3110S.gb/722745‑722841
|
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:1261258/1‑71 (MQ=255)
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:2307459/1‑71 (MQ=255)
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:1423960/1‑71 (MQ=255)
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:1491127/1‑71 (MQ=255)
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:2622473/1‑71 (MQ=255)
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:276374/1‑71 (MQ=255)
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:2781481/1‑71 (MQ=255)
aTCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTaaa > 1:1558025/1‑71 (MQ=255)
tCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAAt < 1:3332505/71‑1 (MQ=255)
tCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAAt < 1:1510463/71‑1 (MQ=255)
tCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAAt < 1:929515/71‑1 (MQ=255)
tCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAAt < 1:3284325/71‑1 (MQ=255)
tCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAAt < 1:2055392/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:843784/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:39894/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:985863/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:3287708/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:2966084/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:2820867/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:867889/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:910363/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:2428868/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:2269618/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:1280377/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:2078278/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:1524205/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGa < 1:2367229/71‑1 (MQ=255)
cTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCGAACAGCACCGTAAGCGGCGTGAGTAAATCATGCGa < 1:1521249/71‑1 (MQ=255)
gATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCTTAAATCATGCGAAAGcgcc > 1:927674/1‑71 (MQ=255)
gATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAATCATGCg > 1:260616/1‑63 (MQ=255)
gATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAATCATGCGAAAgcg > 1:524662/1‑69 (MQ=255)
gATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAATCATGCGAAAGcgcc > 1:157485/1‑71 (MQ=255)
gATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAATCATGCGAAAGcgcc > 1:460168/1‑71 (MQ=255)
gATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACTGTAAGCGGCGTGCGTAAATCATGCGAAAGcgcc > 1:640252/1‑71 (MQ=255)
tAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAggg > 1:1665018/1‑71 (MQ=255)
tAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAggg > 1:907118/1‑71 (MQ=255)
tAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAggg > 1:1952620/1‑71 (MQ=255)
aaGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAgcgc > 1:2097599/1‑59 (MQ=255)
aaGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAGGGc > 1:2040232/1‑71 (MQ=255)
aaGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAGGGc > 1:2043800/1‑71 (MQ=255)
aaGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAGGGc > 1:209412/1‑71 (MQ=255)
aaGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAGGGc > 1:1119311/1‑71 (MQ=255)
aaGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGAGAAAGCGCCGCCAGCAGGGc > 1:1974938/1‑71 (MQ=255)
|
ATCCTTCGCTTGCCAGATCGAGCGTTAAGATTTCTGCCTGACCAAACAGCACCGTAAGCGGCGTGCGTAAATCATGCGAAAGCGCCGCCAGCAGGGC > W3110S.gb/722745‑722841
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
