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 |
|
A64 F1 I1 R1
|
17 |
58.5 |
3743480 |
96.8% |
3623688 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,740,354 |
G→A |
G326G (GGC→GGT) |
hycE ← |
hydrogenase 3, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,740,354 | 0 | G | A | 98.2%
| 207.6
/ ‑4.2
| 57 | G326G (GGC→GGT) | hycE | hydrogenase 3, large subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (35/21); total (35/22) |
| Fisher's exact test for biased strand distribution p-value = 3.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.00e-01 |
GTTGCGCCAGTTGACGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGGCCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGGAAGAACTGC > REL606/2740281‑2740426
|
gTTGCGCCAGTTGACGGGTCTGGATCATTTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGAcc < 2:800790/76‑1 (MQ=255)
cgcCAGTTGACGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAg > 1:1024494/1‑76 (MQ=255)
cAGTTGACGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGtt > 1:1514672/1‑76 (MQ=255)
tggcGGGTCTGGATCTTGTCATCTTCCAGCAGACCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTAc < 2:1029079/73‑1 (MQ=37)
tGACGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTAc > 1:1373067/1‑76 (MQ=255)
gACGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTAcg > 1:1219284/1‑76 (MQ=255)
aCGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTAcgc > 1:717448/1‑76 (MQ=255)
cGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTAcgcg > 1:1180987/1‑76 (MQ=255)
gggTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACgcgc > 1:1168078/1‑76 (MQ=255)
gTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCAc > 1:1150484/1‑76 (MQ=255)
gTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCAc > 1:1215315/1‑76 (MQ=255)
gTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCAc > 1:1517414/1‑76 (MQ=255)
gTCTGGATCATGTCATCTTTCAGCAGACCGCGACAAACCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCAc < 1:143877/76‑1 (MQ=37)
tGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCgg > 1:1852017/1‑76 (MQ=255)
ggATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGt > 1:1353845/1‑76 (MQ=255)
aTCATTTCATCTTTCAGCAGATCGCGACAAACCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTaa < 1:1036373/76‑1 (MQ=25)
aTCATGTCATCTTTCAGCAGACCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTaa < 2:388984/76‑1 (MQ=38)
cATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAgg > 2:1632731/1‑76 (MQ=255)
tGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGAt < 1:687492/76‑1 (MQ=255)
gTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGAtc > 1:1373715/1‑76 (MQ=255)
tCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGAtct > 2:4676/1‑76 (MQ=255)
aTCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATctct > 1:1084330/1‑76 (MQ=255)
aTCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATctct > 1:255939/1‑76 (MQ=255)
aTCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATctct > 1:329539/1‑76 (MQ=255)
tCTTTCAGCAGAGCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTg < 2:78211/76‑1 (MQ=255)
cTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGc > 2:530282/1‑76 (MQ=255)
tttCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGcc > 2:1479751/1‑76 (MQ=255)
tttCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGcc > 1:613074/1‑76 (MQ=255)
tccagcagACCGCGACGAACCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCa < 1:1245341/74‑1 (MQ=37)
agcagATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCAttt < 2:1169844/76‑1 (MQ=255)
agcagATCGCGACGAATCCCGCCGACCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCAttt > 2:862778/1‑76 (MQ=255)
gATCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCAt > 2:1219819/1‑76 (MQ=255)
aTCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATg > 1:1604403/1‑76 (MQ=255)
tCGCGACGAATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATgg > 1:1824277/1‑76 (MQ=255)
gacgaATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGt < 1:296578/76‑1 (MQ=255)
ccgaACCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGtt < 1:1459331/75‑1 (MQ=255)
gaATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTc > 2:283393/1‑76 (MQ=255)
gaATCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTc > 1:595918/1‑76 (MQ=255)
aaTCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTca < 1:809834/76‑1 (MQ=255)
aaTCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTca > 1:1813570/1‑76 (MQ=255)
aaTCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTca < 2:1367437/76‑1 (MQ=255)
aTCCCGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTcac > 2:1863784/1‑76 (MQ=255)
cccGCCGATCAGGTTCAGACCGTAGTTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTcacgc > 1:1775420/1‑76 (MQ=255)
cccGCCGATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTcacgc < 1:284990/76‑1 (MQ=255)
cccGCCGATCAGGTTCAGACAGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTcacgc > 2:1523530/1‑76 (MQ=255)
cgccgATCAGGTTCAGACCGTAGGTTTTATGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTcacgcac < 1:1859415/76‑1 (MQ=255)
cgccgATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTcacgcac < 1:1341269/76‑1 (MQ=255)
cgATCAGGTTCAGGCCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCAcgcg < 1:985968/76‑1 (MQ=255)
cgATCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCAcgcg > 1:1325189/1‑76 (MQ=255)
aTCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGga > 2:578347/1‑76 (MQ=255)
aTCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGga < 2:903647/76‑1 (MQ=255)
aTCAGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGga < 1:1648835/76‑1 (MQ=255)
aGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGgaaga < 2:262793/76‑1 (MQ=255)
aGGTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGgaaga > 2:1815502/1‑76 (MQ=255)
tgTTCAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGgaagaa < 2:509803/75‑1 (MQ=255)
ggTTCAGCCCGTCGGTTTTACGCGCCCCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGgaagaa < 1:944333/76‑1 (MQ=255)
ggTTCAGACCGTAGGTTTTGCGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCggaggac > 1:593141/1‑75 (MQ=38)
cAGACCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGGAAGAACTGc < 1:505527/76‑1 (MQ=255)
|
GTTGCGCCAGTTGACGGGTCTGGATCATGTCATCTTTCAGCAGATCGCGACGAATCCCGCCGATCAGGTTCAGGCCGTAGGTTTTACGCGCACCGGTAAGGATCTCTGCCATTTTCATGGAGGTTTCACGCACGCGGAAGAACTGC > REL606/2740281‑2740426
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
