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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,232,470 |
A→G |
32.5% |
L111L (TTG→CTG) |
ygjM ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,232,470 | 0 | A | G | 32.5%
| 45.8
/ 34.0
| 40 | L111L (TTG→CTG) | ygjM | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (9/18); new base G (8/5); total (17/23) |
| Fisher's exact test for biased strand distribution p-value = 1.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCG > W3110S.gb/3232412‑3232513
|
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGacac > 1:1219955/1‑71 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGacac > 1:866728/1‑71 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGacac > 1:401427/1‑71 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGacac > 1:557228/1‑71 (MQ=255)
ccGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGacac > 1:736579/1‑71 (MQ=255)
gcgTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa < 1:1181742/70‑1 (MQ=255)
gcgTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa < 1:341774/70‑1 (MQ=255)
gcgTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa < 1:337647/70‑1 (MQ=255)
gcgTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGa < 1:800153/70‑1 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:105740/71‑1 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:949430/71‑1 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:1368433/71‑1 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:1455473/71‑1 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:461937/71‑1 (MQ=255)
gTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:1696958/71‑1 (MQ=255)
aTTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGAttt < 1:372874/64‑1 (MQ=255)
aTTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGAttt < 1:1766566/64‑1 (MQ=255)
aTTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGAttt < 1:163505/64‑1 (MQ=255)
aTTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGAttt < 1:14860/64‑1 (MQ=255)
aTTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGAttt < 1:1357072/64‑1 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTAc > 1:1571572/1‑64 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTAc > 1:882675/1‑64 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTAc > 1:361794/1‑64 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAAt > 1:726215/1‑71 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAAt > 1:383552/1‑71 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAAt > 1:1170776/1‑71 (MQ=255)
tttttAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAAt > 1:1390447/1‑71 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:1930906/1‑64 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:1874495/1‑64 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:760592/1‑64 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCgg > 1:866864/1‑64 (MQ=255)
ccAGCGTTAATTTCCTCTTCCCGCTCAGAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGGTCg > 1:22144/1‑71 (MQ=255)
cAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGAttt < 1:1219361/48‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAg < 1:271238/61‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAg < 1:1895488/61‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAg < 1:588065/61‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAg < 1:669795/61‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAg < 1:1893569/61‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAg < 1:1365921/61‑1 (MQ=255)
ttAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAg < 1:1183871/61‑1 (MQ=255)
|
CCGAATCGCGTTGCCAATTTTTTAGCGTGTTCCAGCGTTAATTTCCTCTTCCCGCTCAAAACGCGTGACACCATAGATTTACTGCCAATTTCCGGCAGATCG > W3110S.gb/3232412‑3232513
|
| 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
