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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,517,725 |
G→A |
64.3% |
G450G (GGC→GGT) |
spoT ← |
bifunctional (p)ppGpp synthetase II and guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,517,725 | 0 | G | A | 64.3%
| 22.9
/ 22.3
| 42 | G450G (GGC→GGT) | spoT | bifunctional (p)ppGpp synthetase II and guanosine‑3',5'‑bis pyrophosphate 3'‑pyrophosphohydrolase |
| Reads supporting (aligned to +/- strand): ref base G (9/6); new base A (18/9); total (27/15) |
| Fisher's exact test for biased strand distribution p-value = 7.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.80e-01 |
GCGCGCGCTTTCGAGCTAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCGGCTGCGACAGCGGGTA > minE/2517672‑2517784
|
gcgcgcgcTTTCGAGCTAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAAt < 1:147905/68‑1 (MQ=255)
cgcgcgcTTTCGAGCTAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTGATg < 1:607088/68‑1 (MQ=255)
cgcgcgcTTTCGAGCTAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATg < 1:754106/68‑1 (MQ=255)
gCTAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAAt < 1:869278/54‑1 (MQ=255)
gCTAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTg < 1:129476/69‑1 (MQ=255)
tAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGAc < 1:1028307/69‑1 (MQ=255)
cAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCgg > 1:1994462/1‑69 (MQ=255)
cAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCgg > 1:76995/1‑69 (MQ=255)
cAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCgg > 1:3330162/1‑69 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCTGc < 1:2089309/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:206809/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:2063352/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:2316279/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:2436211/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:1501337/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:609152/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:95149/68‑1 (MQ=255)
gCCACGCGGCATTCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGc < 1:1058932/68‑1 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:2584629/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:596683/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:2741410/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:3393175/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:3419762/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:2233868/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:967569/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:2444661/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:1196785/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:1333099/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:1411940/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:157464/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:1623864/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:1735348/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:1792374/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:1931039/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCgg > 1:2457177/1‑67 (MQ=255)
tCGGGCGAGCACCCGGTGCGGTAATGATTTCAACGGTTTGACCGCTAGTAAGCGGCTGCGACAGCg > 1:863642/1‑66 (MQ=255)
cGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCGGCTGc > 1:1434650/1‑58 (MQ=255)
cGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCGGCTGc > 1:1430251/1‑58 (MQ=255)
cGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCGGCTGc > 1:1033123/1‑58 (MQ=255)
cGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCGGCTGCGACAGCGGGTa > 1:3093535/1‑69 (MQ=255)
cGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCGGCTGCGACAGCGGGTa > 1:1316419/1‑69 (MQ=255)
cGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTAACCGCTGGTAAGCGGCTGc > 1:522708/1‑58 (MQ=255)
|
GCGCGCGCTTTCGAGCTAACGACAAAGTTCAGCCAAGCGGCATTCGGGCGAGCGCCCGGAGCGGTAATGATTTCAACGGTTTGACCGCTGGTAAGCGGCTGCGACAGCGGGTA > minE/2517672‑2517784
|
| 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
