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 |
834,107 |
T→C |
57.7% |
H855H (CAT→CAC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,107 | 0 | T | C | 57.7%
| 17.6
/ 42.2
| 59 | H855H (CAT→CAC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (15/10); new base C (20/14); total (35/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
TGCGTCGGCCATCTGGGTAAAGAAACCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGA > minE/834054‑834174
|
tgCGTCGGCCATCTGGGTAAAGAAACCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTg > 1:523068/1‑67 (MQ=255)
tgCGTCGGCCATCTGGGTAAAGAAACCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGaa > 1:2262736/1‑69 (MQ=255)
tgCGTCGGCCATCTGGGTAAAGAAACCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGaa > 1:2202709/1‑69 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1035166/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:2621894/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:2447446/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:2177150/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:2841081/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:2936416/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:194809/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1941700/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:3138525/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1836885/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1816368/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:3194174/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1664688/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:3229071/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1570834/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1080198/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:908802/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:591271/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:837319/1‑53 (MQ=255)
aaGAAACTGACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTg > 1:1419337/1‑53 (MQ=255)
aaaCCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGa < 1:978939/69‑1 (MQ=255)
aaaCCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGa < 1:278906/69‑1 (MQ=255)
aaCCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGAtgt > 1:530613/1‑66 (MQ=255)
cGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGa < 1:308508/69‑1 (MQ=255)
cGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGa < 1:2193603/69‑1 (MQ=255)
gACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:1612252/69‑1 (MQ=255)
gACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:2405481/69‑1 (MQ=255)
gACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:2710147/69‑1 (MQ=255)
gACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:2276909/69‑1 (MQ=255)
gACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:1520932/69‑1 (MQ=255)
gACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:317010/69‑1 (MQ=255)
gACATCGTCACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:1833031/69‑1 (MQ=255)
gACATCGTCACGCTGCCTAACCACCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:1899343/69‑1 (MQ=255)
cACGCTGCCTATCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:1549700/61‑1 (MQ=255)
tGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg < 1:383702/69‑1 (MQ=255)
tGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg < 1:270032/69‑1 (MQ=255)
tGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg < 1:105807/69‑1 (MQ=255)
tGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg < 1:1932621/69‑1 (MQ=255)
aTCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAATGAc < 1:902562/51‑1 (MQ=38)
aTCCAGCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:3328005/51‑1 (MQ=39)
aTCCACCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:262588/51‑1 (MQ=38)
aTCCACCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:3148449/51‑1 (MQ=38)
ccAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGc < 1:1548990/61‑1 (MQ=255)
ccAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGc > 1:3125758/1‑61 (MQ=255)
ccAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGc < 1:2003030/61‑1 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGAc > 1:2445180/1‑48 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:860090/1‑69 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:134236/1‑69 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:3139990/1‑69 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:672852/1‑69 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:1495621/1‑69 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:2301947/1‑69 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:352087/1‑69 (MQ=255)
cAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGAc > 1:418746/1‑69 (MQ=255)
gCACGACTCTGCCGCTGAACTGGCGCAACCGCTGGATGTGAAAGAc < 1:2173587/46‑1 (MQ=38)
aTGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGa > 1:3012109/1‑69 (MQ=255)
tGACTCTGGCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:1426121/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:1293495/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:1497909/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:526202/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:1526702/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:1640857/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:1731022/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:1835201/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:3083598/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:3076164/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCg > 1:2015773/1‑56 (MQ=255)
tGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGCCg > 1:2201807/1‑56 (MQ=255)
|
TGCGTCGGCCATCTGGGTAAAGAAACCGACATCGTCACGCTGCCTATCCAGCATGACTCTGCCGCTGAACTGGCGCAGCCGCTGGATGTGAAAGACTGGAAAAAAGGCGAGTGCGACCTGA > minE/834054‑834174
|
| 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
