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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,014,812 |
A→G |
12.3% |
I419I (ATT→ATC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,014,812 | 0 | A | G | 12.3%
| 188.6
/ 15.9
| 73 | I419I (ATT→ATC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (34/30); new base G (6/3); total (40/33) |
| Fisher's exact test for biased strand distribution p-value = 4.99e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.08e-01 |
CGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGT > minE/1014745‑1014879
|
cggcggTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAAt < 1:1287834/70‑1 (MQ=255)
cggcggTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATc > 1:188493/1‑71 (MQ=255)
ggTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGgat > 1:3787772/1‑71 (MQ=255)
gtggTTGGGCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGggtg < 1:2136927/68‑1 (MQ=255)
gtggTTGGGCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGggtg < 1:2527792/68‑1 (MQ=255)
tGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCtt > 1:2650276/1‑71 (MQ=255)
gggCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCttt > 1:543991/1‑71 (MQ=255)
gggCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCTTAGTAAATCGGATGATCtt < 1:2035163/70‑1 (MQ=255)
gggCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGG‑CGGACCCGCGTAGTAAATCGGATGATCttt < 1:2515173/70‑1 (MQ=255)
ggCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGggtgat > 1:1382077/1‑66 (MQ=255)
ggCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTg < 1:2918340/71‑1 (MQ=255)
ggCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCttt < 1:230616/70‑1 (MQ=255)
cAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATg < 1:198368/71‑1 (MQ=255)
aaGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGAt > 1:882680/1‑54 (MQ=255)
ccGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGAt < 1:1613924/62‑1 (MQ=255)
ccGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTa > 1:1420406/1‑65 (MQ=255)
ccGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTa > 1:3693017/1‑65 (MQ=255)
ccGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCgg > 1:2969959/1‑71 (MQ=255)
ccGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCgg > 1:3517909/1‑71 (MQ=255)
gAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACt > 1:213795/1‑64 (MQ=255)
gAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAg > 1:3896942/1‑71 (MQ=255)
gAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAg > 1:2229896/1‑71 (MQ=255)
ggCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGcc > 1:2243305/1‑71 (MQ=255)
gcgtAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGccc < 1:2595502/68‑1 (MQ=255)
tAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCtt < 1:2643759/70‑1 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTa > 1:3233718/1‑54 (MQ=255)
ccTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCa < 1:2420601/69‑1 (MQ=255)
ccTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCAcc > 1:143543/1‑71 (MQ=255)
ttCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTc < 1:2228676/66‑1 (MQ=255)
tCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGCCAGCCCTTCACCGt > 1:488754/1‑70 (MQ=255)
ccGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCgg < 1:3254771/55‑1 (MQ=255)
ccGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGtt < 1:1094924/70‑1 (MQ=255)
ccGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGt < 1:302922/69‑1 (MQ=255)
ccGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGt < 1:108366/69‑1 (MQ=255)
cGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGtt < 1:2704992/69‑1 (MQ=255)
cGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACAGtt < 1:196842/69‑1 (MQ=255)
gCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTatcc < 1:1564775/71‑1 (MQ=255)
gCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTatc > 1:2730299/1‑70 (MQ=255)
cGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTatcca > 1:2059890/1‑71 (MQ=255)
gTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTg < 1:3542489/47‑1 (MQ=255)
gTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTGATGTAc > 1:713077/1‑45 (MQ=255)
tttGGCCGGACCCGCGTAGTAAATCGGATGATCttt < 1:2619144/36‑1 (MQ=255)
ttGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTa > 1:1490294/1‑41 (MQ=255)
ttGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCg > 1:3425916/1‑71 (MQ=255)
ttGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCg > 1:1528501/1‑71 (MQ=255)
ttGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCg > 1:1232564/1‑71 (MQ=255)
ccGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCAATCCGctct > 1:2956843/1‑71 (MQ=255)
ggACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGctct < 1:1457333/69‑1 (MQ=255)
ggACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCttt > 1:3216791/1‑71 (MQ=255)
ggACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCtt > 1:3115580/1‑70 (MQ=255)
aCCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCttt > 1:1319956/1‑69 (MQ=255)
cccGCGTAGTAGATCGGGTGATCTTTGATGTACTGCGGAAGTTCTTTACCGGCGTCAATCAGCTCTTTCAg > 1:3807735/1‑71 (MQ=255)
ccGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCtt < 1:3533303/45‑1 (MQ=255)
cgcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGtt < 1:1717469/71‑1 (MQ=255)
cgcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGt < 1:3527835/70‑1 (MQ=255)
gcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCa > 1:3656035/1‑45 (MQ=255)
gcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCa > 1:2371886/1‑45 (MQ=255)
gcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGttt < 1:3558368/71‑1 (MQ=255)
cgTAGTAGATCGGGTGATCTTTGATGTACTGCTGAAGTTCTTTACCGGCGTCAATCAGCTCTTTCAGCTTg > 1:1727343/1‑71 (MQ=255)
cgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTc > 1:3640295/1‑65 (MQ=255)
gtagtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTatccatc > 1:3374473/1‑55 (MQ=255)
tagtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGtt < 1:2650193/47‑1 (MQ=255)
tagtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGc > 1:3248303/1‑71 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCTCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt > 1:2768525/1‑71 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTc < 1:1265438/61‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt < 1:1093456/71‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt > 1:2888457/1‑71 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt > 1:2522308/1‑71 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt > 1:3375109/1‑71 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt > 1:3070184/1‑71 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt < 1:2131266/71‑1 (MQ=255)
taAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCtt < 1:1791231/58‑1 (MQ=255)
taAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTc < 1:2877466/60‑1 (MQ=255)
aaaTCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGct > 1:2195174/1‑54 (MQ=255)
aaaTCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt > 1:2008715/1‑69 (MQ=255)
|
CGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGT > minE/1014745‑1014879
|
| 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
