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 |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,681,551 |
Δ1 bp |
coding (1653/1851 nt) |
ilvD ← |
dihydroxyacid dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,681,549 | 0 | G | . | 75.0%
| 47.1
/ 28.0
| 28 | coding (1655/1851 nt) | ilvD | dihydroxyacid dehydratase |
| Reads supporting (aligned to +/- strand): ref base G (1/6); new base . (0/21); total (1/27) |
| Fisher's exact test for biased strand distribution p-value = 2.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 |
CGCTTCACGACGCGCCGCCAGTTCGGCATCGCTTACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGC > W3110S.gb/3681491‑3681588
|
cgcTTCACGACGCGCCGCCAGTTCGGCATCGCTTACCTGTAACTGAATGCCACGGTTCGGGa > 1:1366918/1‑62 (MQ=255)
ttACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATc < 1:811433/62‑1 (MQ=255)
ttACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATc < 1:683972/62‑1 (MQ=255)
ttACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATc < 1:1907522/62‑1 (MQ=255)
ttACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATc < 1:2846189/62‑1 (MQ=255)
ttACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATc < 1:2436555/62‑1 (MQ=255)
tACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATc < 1:2235149/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:2246182/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:982212/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:899624/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:857193/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:462154/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:3065912/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:2989954/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:2972341/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:2844567/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:281022/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:1004862/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:2107710/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:2099083/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:2063316/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:1947881/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:1724492/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:1694448/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:1676636/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:1412850/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:123443/61‑1 (MQ=255)
cTGTAACTGAATGCCACGGTTC‑GGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGc < 1:1097523/61‑1 (MQ=255)
|
CGCTTCACGACGCGCCGCCAGTTCGGCATCGCTTACCTGTAACTGAATGCCACGGTTCGGGATGTCGATAGCGATCAGGTCACCATCTTCAATCAGGC > W3110S.gb/3681491‑3681588
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
