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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,509,579 |
G→A |
30.9% |
A42T (GCA→ACA) |
ackA → |
acetate kinase A and propionate kinase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,509,579 | 0 | G | A | 30.9%
| 79.8
/ 42.6
| 55 | A42T (GCA→ACA) | ackA | acetate kinase A and propionate kinase 2 |
| Reads supporting (aligned to +/- strand): ref base G (16/22); new base A (5/12); total (21/34) |
| Fisher's exact test for biased strand distribution p-value = 5.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCATCGATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAGGTGCAGGCGCCGCTCA > minE/1509513‑1509643
|
atcatcGATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACg < 1:74760/71‑1 (MQ=255)
tcatcGATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGt < 1:1997282/71‑1 (MQ=255)
cGATGCAGTAAATGGTGAAGATTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATc > 1:185271/1‑70 (MQ=255)
cGATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATc > 1:503030/1‑70 (MQ=255)
gATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaa < 1:1972831/71‑1 (MQ=255)
gATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaa < 1:1282013/71‑1 (MQ=255)
gATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaa < 1:1284660/71‑1 (MQ=255)
gATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCa > 1:737569/1‑70 (MQ=255)
gATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCa < 1:2061452/70‑1 (MQ=255)
gATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCa < 1:851385/70‑1 (MQ=255)
gTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCaaatgga > 1:1342000/1‑70 (MQ=255)
gTAAATGGTGAAGAGTACCTTTCTGGTTTAGACGAATGTTTCCACCTGCCCGAAGCACGTATCa < 1:1343242/64‑1 (MQ=255)
aaTGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatggaaaa < 1:1982101/70‑1 (MQ=255)
aaTGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCaaatggaaaat > 1:1354607/1‑71 (MQ=255)
aaTGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCaaatggaaaat > 1:156113/1‑71 (MQ=255)
aTGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatggaaaatg < 1:1095843/71‑1 (MQ=255)
aTGGGGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatggaaaatg < 1:467874/71‑1 (MQ=255)
ggTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatggaaaatgga > 1:42599/1‑71 (MQ=255)
ggTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatggaaaatgga > 1:1893927/1‑71 (MQ=255)
gTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatggaaaatgg > 1:303430/1‑69 (MQ=255)
aaGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatgg < 1:393136/59‑1 (MQ=255)
gagTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCaaatggaa > 1:474362/1‑59 (MQ=255)
gagTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCaa < 1:2200792/71‑1 (MQ=255)
agTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCaa > 1:1305914/1‑70 (MQ=255)
gTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATa < 1:388835/71‑1 (MQ=255)
tACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCa < 1:869092/49‑1 (MQ=255)
tACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCa < 1:10670/49‑1 (MQ=255)
tACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCa < 1:1111094/49‑1 (MQ=255)
tACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATa > 1:1060067/1‑70 (MQ=255)
tACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATa > 1:1431783/1‑70 (MQ=255)
tACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCa < 1:1693450/49‑1 (MQ=255)
tACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCa < 1:232851/49‑1 (MQ=255)
ccTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATaaa < 1:50033/70‑1 (MQ=255)
ccTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATaaa < 1:306416/70‑1 (MQ=255)
tCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCaaatggaaaa > 1:41597/1‑52 (MQ=255)
cTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGa < 1:686138/70‑1 (MQ=255)
cTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGa < 1:1073730/70‑1 (MQ=255)
cTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGa < 1:234917/70‑1 (MQ=255)
cTGGTTTAGCCGAATGTTTCCACCTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATAAACAGGa < 1:1227913/70‑1 (MQ=255)
gTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATaaa > 1:232628/1‑62 (MQ=255)
gCCGAATGTTTCCACCTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGAGGCttt < 1:370385/71‑1 (MQ=255)
gAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAgg > 1:28689/1‑71 (MQ=255)
gAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAgg > 1:26102/1‑71 (MQ=255)
aTGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAgg > 1:1359644/1‑69 (MQ=255)
aTGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAg > 1:1637691/1‑68 (MQ=255)
tttCCACCTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCttt < 1:1972934/63‑1 (MQ=255)
aCCTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATa < 1:1933316/42‑1 (MQ=255)
ccTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCttt < 1:2148543/57‑1 (MQ=255)
ccTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCttt < 1:498338/57‑1 (MQ=255)
cTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATaaa > 1:1586534/1‑42 (MQ=255)
cTGCCCGAAACACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAGGt < 1:1178269/60‑1 (MQ=255)
cccGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAGGTGCAGGCGCCGCt < 1:1993433/69‑1 (MQ=255)
cccGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAGGTGCAGGCGCCGCTca < 1:63066/71‑1 (MQ=255)
ccGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCttt < 1:1806343/52‑1 (MQ=255)
aaGCACGTATCAAATGGAAAATGGACGGCAATaaa > 1:291289/1‑35 (MQ=255)
gCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTa < 1:1231779/48‑1 (MQ=255)
|
ATCATCGATGCAGTAAATGGTGAAGAGTACCTTTCTGGTTTAGCCGAATGTTTCCACCTGCCCGAAGCACGTATCAAATGGAAAATGGACGGCAATAAACAGGAAGCGGCTTTAGGTGCAGGCGCCGCTCA > minE/1509513‑1509643
|
| 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
