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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,426,674 |
T→C |
71.2% |
D393D (GAT→GAC) |
trkG → |
potassium transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,426,674 | 0 | T | C | 71.2%
| 93.7
/ 43.0
| 59 | D393D (GAT→GAC) | trkG | potassium transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (8/9); new base C (23/19); total (31/28) |
| Fisher's exact test for biased strand distribution p-value = 7.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
AAATCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATA > W3110S.gb/1426611‑1426737
|
aaaTCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt < 1:3453314/69‑1 (MQ=255)
aaTCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt < 1:734552/68‑1 (MQ=255)
cAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATg < 1:2915352/69‑1 (MQ=255)
cAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATg < 1:3655926/69‑1 (MQ=255)
cAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATg < 1:2258361/69‑1 (MQ=255)
cAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATg < 1:3594594/69‑1 (MQ=255)
cAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATg < 1:399438/69‑1 (MQ=255)
cAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGGGTAATg < 1:1291166/69‑1 (MQ=255)
ttCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt > 1:2510371/1‑60 (MQ=255)
ttCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt > 1:2328821/1‑60 (MQ=255)
ttCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt > 1:501147/1‑60 (MQ=255)
ttCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt > 1:1397418/1‑60 (MQ=255)
ttCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt > 1:630647/1‑60 (MQ=255)
ttCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCgtgt > 1:782831/1‑60 (MQ=255)
tcATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTg < 1:468666/68‑1 (MQ=255)
cccAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATgg < 1:2668316/69‑1 (MQ=255)
cccAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATgg < 1:2228652/69‑1 (MQ=255)
ccAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGa > 1:2565422/1‑69 (MQ=255)
tgttgAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGtttctttt > 1:513786/1‑69 (MQ=255)
tgttgAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGtttcttt > 1:1465541/1‑68 (MQ=255)
tgttgAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGtttcttt > 1:1374717/1‑68 (MQ=255)
tgttgAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGtttcttt > 1:1856900/1‑68 (MQ=255)
gAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCgtgt > 1:195154/1‑39 (MQ=255)
gAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCgtgt > 1:748226/1‑39 (MQ=255)
gtgtAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGtttctttt > 1:463744/1‑63 (MQ=255)
gtgtAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGtttcttttttctt < 1:2021141/68‑1 (MQ=255)
gtgtAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGtttcttttttctt < 1:900888/68‑1 (MQ=255)
tgtAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTta < 1:3551467/69‑1 (MQ=255)
tgtAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTta < 1:573028/69‑1 (MQ=255)
tgtAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTta < 1:1172118/69‑1 (MQ=255)
tgtAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTta < 1:2094186/69‑1 (MQ=255)
tAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGtttcttttttcttt > 1:1299534/1‑66 (MQ=255)
tAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTta > 1:1212901/1‑67 (MQ=255)
aaTGTAGGAGGGAAGATAGTTACAGATCGTGTAAt > 1:1318512/1‑35 (MQ=255)
aaTGTAGGAGGGAAGATAGTTACAGATCGTGTAAt < 1:2890702/35‑1 (MQ=255)
aaTGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATAct < 1:1486919/69‑1 (MQ=255)
aaTGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATAct < 1:3391548/69‑1 (MQ=255)
aaTGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATAct < 1:3197936/69‑1 (MQ=255)
aaTGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATAct > 1:3064383/1‑69 (MQ=255)
aaTGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATAc > 1:2368093/1‑68 (MQ=255)
tAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATActctc > 1:640842/1‑68 (MQ=255)
tAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATActctc > 1:636121/1‑68 (MQ=255)
aggaggGAAGATAGTTACAGATCGTGTAATGAGGTCTg < 1:1744121/38‑1 (MQ=255)
ggAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACgg < 1:2649119/69‑1 (MQ=255)
aaGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGtttcttttttctt > 1:2047257/1‑51 (MQ=255)
aaGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGtttcttttttctt > 1:1742961/1‑51 (MQ=255)
aaGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACg > 1:103701/1‑66 (MQ=255)
aaGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGgtg > 1:1582786/1‑69 (MQ=255)
aaGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGgtg > 1:1571146/1‑69 (MQ=255)
aaGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGgtg > 1:3323062/1‑69 (MQ=255)
aaGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGgtg > 1:2614036/1‑69 (MQ=255)
tAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGttt > 1:1717234/1‑68 (MQ=255)
aGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGttttt < 1:1329056/69‑1 (MQ=255)
aGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGttttt > 1:2021281/1‑69 (MQ=255)
aGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGttttt < 1:1298521/69‑1 (MQ=255)
aGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGttttt < 1:2420284/69‑1 (MQ=255)
tACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:1554168/68‑1 (MQ=255)
tACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:2484533/68‑1 (MQ=255)
aCAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTtata > 1:3325738/1‑69 (MQ=255)
|
AAATCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATA > W3110S.gb/1426611‑1426737
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
