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 |
450,085 |
G→A |
63.3% |
L85L (CTG→TTG) |
kdpB ← |
potassium translocating ATPase, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 450,085 | 0 | G | A | 63.3%
| 36.9
/ 41.0
| 68 | L85L (CTG→TTG) | kdpB | potassium translocating ATPase, subunit B |
| Reads supporting (aligned to +/- strand): ref base G (19/6); new base A (32/11); total (51/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01 |
TTTTTTCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCCACAGCCAACCGCTAATGGCCGCGCTAAAC > minE/450032‑450149
|
ttttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAAtt > 1:3273872/1‑69 (MQ=255)
ttttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAAtt > 1:286500/1‑69 (MQ=255)
ttttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAAtt > 1:1813802/1‑69 (MQ=255)
ttttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAAtt > 1:475937/1‑69 (MQ=255)
ttttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAAtt > 1:2127498/1‑69 (MQ=255)
ttttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAAtt > 1:2044645/1‑69 (MQ=255)
ttttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAAt > 1:1611762/1‑68 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:336759/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:1741609/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:3131022/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:1589071/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:3014997/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:2162203/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:1315117/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTa > 1:2339796/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACTCCTCGGCGAAATTa > 1:182785/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAAtt > 1:1498558/1‑68 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAAtt > 1:2877169/1‑68 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTa > 1:2881082/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTa > 1:336315/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTa > 1:2241515/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTa > 1:1466450/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTa > 1:290223/1‑69 (MQ=255)
tttttCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTa > 1:833313/1‑69 (MQ=255)
cTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATc < 1:2832965/69‑1 (MQ=255)
cTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATc < 1:3330041/69‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCcaca > 1:1757980/1‑68 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCcaca > 1:2608918/1‑68 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCcaca > 1:1605902/1‑68 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCcaca > 1:755042/1‑68 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:3266560/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:2536967/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:2989297/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:958777/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:1688204/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:1681538/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:1668986/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:1467563/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:1189977/67‑1 (MQ=255)
ggCCTGCGCTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:895720/67‑1 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:392618/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:44110/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:50417/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:61459/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:721457/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:2437675/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:2793809/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:1091420/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:1452982/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:1725050/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:1872685/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:2441991/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTa > 1:1001291/1‑48 (MQ=255)
cTTTACTGCGGCCTTCTGCCAACGCCTAGGCGAAATTAGCGAACAGTa > 1:557193/1‑48 (MQ=39)
tttACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCCACAGCCAACCGCt < 1:256855/69‑1 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:154130/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:1080369/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:2808720/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:1141914/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:1255917/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:2633415/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:1463041/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:1627929/1‑51 (MQ=255)
tACTGCGGCCTTCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGa > 1:1785705/1‑51 (MQ=255)
ttCTGCCAACGCCTCGGCGAAATTAGCGAACAGTACGGTGACCcac < 1:2222698/46‑1 (MQ=255)
aGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCCACAGCCAACCGCTAATGGCCGCGCTAAAc < 1:3417381/66‑1 (MQ=255)
aGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCCACAGCCAACCGCTAATGGCCGCGCTAAAc < 1:2295532/66‑1 (MQ=255)
aGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCCACAGCCAACCGCTAATGGACGCGCTAAAc < 1:757039/66‑1 (MQ=255)
|
TTTTTTCACCCCTTTCAGACTGTTGGCCTGCGCTTTACTGCGGCCTTCTGCCAGCGCCTCGGCGAAATTAGCGAACAGTACGGTGATCCACAGCCAACCGCTAATGGCCGCGCTAAAC > minE/450032‑450149
|
| 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
