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 |
2,250,566 |
C→T |
54.5% |
I16I (ATC→ATT) |
thiH → |
thiamin biosynthesis ThiGH complex subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,250,566 | 0 | C | T | 54.5%
| 3.8
/ 54.7
| 66 | I16I (ATC→ATT) | thiH | thiamin biosynthesis ThiGH complex subunit |
| Reads supporting (aligned to +/- strand): ref base C (23/7); new base T (24/12); total (47/19) |
| Fisher's exact test for biased strand distribution p-value = 4.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.59e-01 |
GGCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACT > minE/2250510‑2250628
|
ggCATCGGCATGAAAACCTTCGGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:232378/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:991789/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:2460125/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:1749148/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:1700952/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:3388591/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:47745/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:560113/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:139545/69‑1 (MQ=255)
ggCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:946597/69‑1 (MQ=255)
cATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATTCGCCTGCGTATc < 1:2919074/67‑1 (MQ=255)
ggCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACgg > 1:1437042/1‑68 (MQ=255)
ggCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACgg > 1:2793335/1‑68 (MQ=255)
ggCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACgg > 1:2714004/1‑68 (MQ=255)
ggCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACg > 1:3339256/1‑67 (MQ=255)
ggCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACg > 1:3335022/1‑67 (MQ=255)
aaaaCCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATcc < 1:3404456/46‑1 (MQ=255)
aaaaCCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATcc < 1:2980032/46‑1 (MQ=255)
aaaaCCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATc < 1:2733630/57‑1 (MQ=255)
aaaaCCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATc < 1:2675802/57‑1 (MQ=255)
aaaaCCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATc < 1:2826217/57‑1 (MQ=255)
cgatGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGAGGTagag > 1:1683500/4‑69 (MQ=255)
cGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGCCGTagc > 1:369539/1‑67 (MQ=255)
cGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTagag > 1:1591575/1‑69 (MQ=255)
cGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTagag > 1:3309131/1‑69 (MQ=255)
cGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTagag > 1:1942964/1‑69 (MQ=255)
cGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTagag > 1:724567/1‑69 (MQ=255)
cGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTagag > 1:1687910/1‑69 (MQ=255)
cGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTagag > 1:927874/1‑69 (MQ=255)
ggCTACAACTGGACTGGGACGACATCCGCCTGCGTATc < 1:3300125/38‑1 (MQ=255)
ggCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCggg < 1:3104559/69‑1 (MQ=255)
gACAACTGGACTGGCACGACATTCGCCTGCGTATc < 1:2183571/35‑1 (MQ=38)
cAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTa < 1:1745478/69‑1 (MQ=255)
aaCTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTa < 1:1511196/68‑1 (MQ=255)
tggactggGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATg > 1:149274/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTTTCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:3208241/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:1722271/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:922033/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:1937857/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:2706997/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:38993/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:2449932/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:3328447/1‑69 (MQ=255)
ggACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCa > 1:2385118/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGgcg > 1:2282388/1‑52 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAAc > 1:3037849/1‑68 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:1096384/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:553437/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:976883/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:1172123/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:577495/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:642352/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:648636/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:93379/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:910262/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:1544848/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:165974/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:3282443/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:3242929/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:3202005/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:2943952/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:1004737/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:1827721/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:2135487/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:2418421/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:2152931/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACt > 1:2322237/1‑69 (MQ=255)
cgacATTCGCCTGCGTATCAACAGCAAAACGGCTGCTGACGTAGAGCCGGCGCTAAATGCCTCGCAACt > 1:3032552/1‑69 (MQ=255)
|
GGCATCGGCATGAAAACCTTCAGCGATCGCTGGCGACAACTGGACTGGGACGACATCCGCCTGCGTATCAACGGCAAAACGGCTGCTGACGTAGAGCGGGCGCTAAATGCCTCGCAACT > minE/2250510‑2250628
|
| 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
