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 |
511,079 |
A→G |
59.2% |
A374A (GCA→GCG) |
ybhJ → |
predicted hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 511,079 | 0 | A | G | 59.2%
| 16.1
/ 27.7
| 44 | A374A (GCA→GCG) | ybhJ | predicted hydratase |
| Reads supporting (aligned to +/- strand): ref base A (16/2); new base G (16/10); total (32/12) |
| Fisher's exact test for biased strand distribution p-value = 8.33e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGATTATCGCGGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCTTCTCGCTGGCAGTTTA > minE/511021‑511126
|
ggATTATCGCGGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTc > 1:1825681/1‑69 (MQ=255)
gATTATCGCGGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCa > 1:3325250/1‑69 (MQ=255)
aTCGCGGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATcc > 1:1126020/1‑69 (MQ=255)
cgcgGGTTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:3173644/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:1140566/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:858794/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:657873/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:44967/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:3397393/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:2844764/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:2645629/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:1995694/68‑1 (MQ=255)
cgcgGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCt < 1:1654052/68‑1 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAAt > 1:2992344/1‑54 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAAt > 1:759128/1‑54 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAAt > 1:1519448/1‑54 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAAt > 1:1897765/1‑54 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAAt > 1:250507/1‑65 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAAt > 1:2837845/1‑65 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAAt > 1:2403893/1‑65 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAAt > 1:3404110/1‑65 (MQ=255)
cTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGaca > 1:1813642/1‑69 (MQ=255)
ggTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCtt < 1:2777284/68‑1 (MQ=255)
ggTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCtt < 1:1723267/68‑1 (MQ=255)
gTAACTACGAAAACGTCATCGCTGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:960228/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCTGCGAATGCGCTGCGCGGTCAAACCTGCGGCAATGACACCTtct > 1:2760552/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:92715/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:2871390/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:1982473/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:320880/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:1697939/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:3341571/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:1693959/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:2866449/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:3418469/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:356875/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:1750338/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:541914/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:627792/1‑69 (MQ=255)
gTAACTACGAAAACGTCATCGCGGCGGCGAATGCGCTGCGCGGTCAATCCTGCGGCAATGACACCTtct > 1:2844484/1‑69 (MQ=255)
aaCTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCTTCTCg > 1:3182841/1‑69 (MQ=255)
aaCTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCTTCTCg > 1:1465771/1‑69 (MQ=255)
gTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCTTCTCGCTGGCAGTTTa > 1:2877490/1‑68 (MQ=255)
gTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCTTCTCGCTGGCAGTTTa > 1:1987993/1‑68 (MQ=255)
|
GGATTATCGCGGGCTGTTCTGGCGGTAACTACGAAAACGTCATCGCGGCGGCGAATGCACTGCGCGGTCAATCCTGTGGCAATGACACCTTCTCGCTGGCAGTTTA > minE/511021‑511126
|
| 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
