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 |
262,850 |
G→A |
31.8% |
L309L (CTG→CTA) |
ribD → |
fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 262,850 | 0 | G | A | 31.8%
| 71.7
/ 38.9
| 82 | L309L (CTG→CTA) | ribD | fused diaminohydroxyphosphoribosylaminopyrimidin e deaminase and 5‑amino‑6‑(5‑phosphoribosylamino) uracil reductase |
| Reads supporting (aligned to +/- strand): ref base G (24/31); new base A (17/9); total (42/40) |
| Fisher's exact test for biased strand distribution p-value = 9.57e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAACAGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACT > minE/262791‑262897
|
aaaCAGCAAATTAACAGCATCTGTGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCa < 1:1918739/62‑1 (MQ=255)
aaaCAGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCa < 1:2482233/62‑1 (MQ=255)
aaaCAGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCa < 1:1686007/62‑1 (MQ=255)
aaaCAGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCa < 1:3121066/62‑1 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACa > 1:2794476/1‑61 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:2988858/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:2160468/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:2274235/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:2372531/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:1909205/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:265616/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:2902177/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:1608415/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:3024509/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:3340768/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:1088122/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:1108819/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:668389/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:638462/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCggg > 1:143199/1‑67 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTACAGGCGGGt > 1:651894/1‑68 (MQ=255)
aaCAGCAGATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCT‑‑AGGCGGGTTTa > 1:1559040/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTa > 1:2955053/1‑68 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTa > 1:2025239/1‑68 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAg > 1:3114066/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAg > 1:1406440/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAg > 1:1273666/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAg > 1:3038852/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAg > 1:258275/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAg > 1:1946240/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAg > 1:1451544/1‑69 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGAAGGCGGGTTTa > 1:1194100/1‑68 (MQ=255)
aGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGATGGCGCATTGCTGCAGGCGGGTTTAg > 1:967922/1‑69 (MQ=255)
cAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTc > 1:1027071/1‑69 (MQ=255)
cAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTc > 1:2939255/1‑69 (MQ=255)
cAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTc > 1:2894821/1‑69 (MQ=255)
cAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTc > 1:2942993/1‑69 (MQ=255)
aaCAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAg > 1:3362874/1‑69 (MQ=255)
aaCAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAg > 1:3366739/1‑69 (MQ=255)
tGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGt > 1:2549959/1‑68 (MQ=255)
tGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTc > 1:608929/1‑69 (MQ=255)
tGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTc > 1:2905339/1‑69 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGGGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCtat < 1:1424532/68‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGTTTTAGTCGATGAGCTGATTGTCtat < 1:2371849/68‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCtat < 1:3344401/68‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCtat < 1:1816036/68‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCtat < 1:2345647/68‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCtat < 1:947365/68‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:449569/67‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:22114/67‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:3331287/67‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:1484344/67‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:1532352/67‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:162401/67‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:1848436/67‑1 (MQ=255)
tGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:1699672/67‑1 (MQ=255)
gAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:2876171/65‑1 (MQ=255)
gAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:1927796/65‑1 (MQ=255)
gAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:2543174/65‑1 (MQ=255)
gAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCta < 1:277336/65‑1 (MQ=255)
ggggCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCAc > 1:717251/1‑68 (MQ=255)
ggggCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCAc > 1:2979676/1‑68 (MQ=255)
ggggCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCAc > 1:2857128/1‑68 (MQ=255)
ggggCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCAc > 1:252042/1‑68 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:2753949/69‑1 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:2214558/69‑1 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:817031/69‑1 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:1117329/69‑1 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:1167152/69‑1 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:3431146/69‑1 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:2008599/69‑1 (MQ=255)
cAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAAc < 1:1189857/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:2069247/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:3001523/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:2012635/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:570357/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:1657977/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:3138237/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:1409441/69‑1 (MQ=255)
aaCGCTCGCTGGCGCATTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:1466391/69‑1 (MQ=255)
cgcATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCtat < 1:3189876/43‑1 (MQ=255)
aTTGCTACAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACt < 1:1262691/54‑1 (MQ=255)
|
AAACAGCAAATTAACAGCATCTGGGTGGAAGCGGGGCCAACGCTCGCTGGCGCATTGCTGCAGGCGGGTTTAGTCGATGAGCTGATTGTCTATATCGCACCTAAACT > minE/262791‑262897
|
| 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
