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 |
|
A6 F28 I3 R2
|
24 |
47.7 |
2431847 |
96.1% |
2337004 |
60.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
1,017,691 |
A→G |
E50G (GAA→GGA) |
ydgA → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,017,691 | 0 | A | G | 95.1%
| 138.6
/ ‑1.3
| 41 | E50G (GAA→GGA) | ydgA | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base G (13/26); total (14/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01 |
AACCCATCTCGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGAATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCAACTGTTG > minE/1017632‑1017758
|
aaCCCATCTCGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTg > 1:2066694/1‑70 (MQ=255)
aCCCATCTCGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTgg > 1:2059297/1‑70 (MQ=255)
cATCTCGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGt < 1:1268780/71‑1 (MQ=255)
cATCTCGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGt < 1:2377/71‑1 (MQ=255)
aTCTCGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGAATCCAACCTGGAAGt > 1:2074397/1‑70 (MQ=255)
cGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGt > 1:204373/1‑70 (MQ=255)
gAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATcc < 1:697060/54‑1 (MQ=255)
gAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAg < 1:595869/68‑1 (MQ=255)
aGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCaa > 1:202822/1‑54 (MQ=255)
ggTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTAt < 1:2202351/64‑1 (MQ=255)
gTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACt < 1:898538/70‑1 (MQ=255)
gTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACt < 1:2232911/70‑1 (MQ=255)
gTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACt < 1:1730951/70‑1 (MQ=255)
ttgcgcAGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCaaa < 1:1137612/64‑1 (MQ=255)
aGGCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGaa > 1:1092540/1‑47 (MQ=255)
gCGAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGtt > 1:1774474/1‑52 (MQ=255)
gAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGtt < 1:539414/50‑1 (MQ=255)
gAACGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCaaaa > 1:2378874/1‑57 (MQ=255)
aaCGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGt < 1:2132201/71‑1 (MQ=255)
aCGCGCAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTAt > 1:1693290/1‑50 (MQ=255)
gcgcAACTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTAtt < 1:1887345/71‑1 (MQ=255)
aCTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTcag > 1:1925052/1‑69 (MQ=255)
aCTCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTcag > 1:577762/1‑69 (MQ=255)
tCAAACTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATc < 1:1403556/42‑1 (MQ=255)
aaaCTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACt < 1:1722069/46‑1 (MQ=255)
aaaCTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCagcagc > 1:1422031/1‑69 (MQ=255)
aaaCTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCagcagc > 1:575847/1‑69 (MQ=255)
aaaCTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGcc < 1:1365124/70‑1 (MQ=255)
aaCTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAg < 1:1234547/71‑1 (MQ=255)
aaCTGACAGCTCCTGAATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAg < 1:952516/71‑1 (MQ=255)
aCTGACAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGt < 1:487590/71‑1 (MQ=255)
aCAGCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCa < 1:2012538/71‑1 (MQ=255)
gCTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCAACt < 1:579025/71‑1 (MQ=255)
cTCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCAACTg > 1:1029628/1‑71 (MQ=255)
tCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATcgc < 1:1842642/43‑1 (MQ=255)
tCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTcagca < 1:1903616/56‑1 (MQ=255)
tCCTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTcag < 1:888738/54‑1 (MQ=255)
cTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTca < 1:2133772/51‑1 (MQ=255)
cTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCAACTGtt < 1:1216765/70‑1 (MQ=255)
cTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCAACTGt < 1:2102787/69‑1 (MQ=255)
cTGGATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCAACTGTTg < 1:2185763/71‑1 (MQ=255)
|
AACCCATCTCGAAGACATGGTCGCGCAGGCGAACGCGCAACTCAAACTGACAGCTCCTGAATCCAACCTGGAAGTGAGTTATCAAAACTATCATCGCGGCGTATTCAGCAGCCAGTTGCAACTGTTG > minE/1017632‑1017758
|
| 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
