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 |
2,591,000 |
T→A |
36.0% |
V17V (GTT→GTA) |
hdeA → |
stress response protein acid‑resistance protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,591,000 | 0 | T | A | 36.0%
| 93.2
/ 93.0
| 111 | V17V (GTT→GTA) | hdeA | stress response protein acid‑resistance protein |
| Reads supporting (aligned to +/- strand): ref base T (28/43); new base A (21/19); total (49/62) |
| Fisher's exact test for biased strand distribution p-value = 2.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
Only 100 of 111 total aligned reads displayed.
GAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTCAAC > minE/2590938‑2591054
|
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:244894/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:3192685/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:3226304/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:3144030/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:3076710/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:3244466/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:472894/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:473425/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:3060001/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:2407770/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:2988217/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:2578241/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:136742/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:1275258/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:1102020/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:878390/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:1188474/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:1196130/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:864053/69‑1 (MQ=255)
gAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:812233/69‑1 (MQ=255)
gATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCaa < 1:1532185/68‑1 (MQ=255)
gATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCaa < 1:3054221/68‑1 (MQ=255)
atTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCAAGTTGTGAGCAATGCa > 1:1270660/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:1543785/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:1474259/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:506189/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:2174039/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:29474/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:781144/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:1079973/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:951160/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:2098156/1‑69 (MQ=255)
ttACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAg > 1:2667646/1‑69 (MQ=255)
aCGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCg < 1:966778/69‑1 (MQ=255)
aCGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCg < 1:3243709/69‑1 (MQ=255)
aCGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCg < 1:1603992/69‑1 (MQ=255)
aaGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTGTGCCAGTTGTGAGCAATGCAGCGGATGCGCaaa < 1:673046/69‑1 (MQ=255)
aaGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCaaa < 1:2060144/69‑1 (MQ=255)
aaGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCaaa < 1:1987403/69‑1 (MQ=255)
aaGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCaaa < 1:575666/69‑1 (MQ=255)
aaGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCaaa < 1:2903176/69‑1 (MQ=255)
aaGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCaaa < 1:1026971/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCTCaaaa < 1:3017012/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:629653/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:672743/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:736031/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:766539/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:2844800/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:2841692/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:2823466/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:1652952/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:1693330/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:1447452/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:1376486/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:1284357/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:1254205/69‑1 (MQ=255)
aGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTAGTGAGCAATGCAGCGGATGCACaaaa < 1:2461095/69‑1 (MQ=255)
ttAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAagca > 1:284852/1‑69 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAg > 1:2955137/1‑35 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc > 1:1137903/1‑36 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc > 1:1902596/1‑36 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc > 1:712010/1‑36 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc > 1:940293/1‑36 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc > 1:3098746/1‑36 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc > 1:2165765/1‑36 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc > 1:303476/1‑36 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATaa > 1:2216069/1‑68 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATaa > 1:1211019/1‑68 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATaa > 1:1411392/1‑68 (MQ=255)
aTTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATaa > 1:289044/1‑68 (MQ=255)
ttCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGc < 1:316036/35‑1 (MQ=255)
ttCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCg < 1:3204345/44‑1 (MQ=255)
cTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTc < 1:495866/69‑1 (MQ=255)
cTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTc < 1:952910/69‑1 (MQ=255)
cTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTc < 1:3228198/69‑1 (MQ=255)
cTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTc < 1:247092/69‑1 (MQ=255)
gCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTc < 1:491841/67‑1 (MQ=255)
cttcttCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTCAAc > 1:668183/1‑69 (MQ=255)
cttcttCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTCAAc > 1:1042619/1‑69 (MQ=255)
cttcttCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTCAAc > 1:1556102/1‑69 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:1617078/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:458694/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:3271568/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:2896481/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:2057454/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:2608252/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:924728/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:2060678/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:2136088/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:603186/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:843540/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:2383094/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:2431618/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGa > 1:920692/1‑47 (MQ=255)
cttctGCCAGTAGTGAGCAATGCAGCGGAAGCACAAAAAGCAGCTGa > 1:2140641/1‑47 (MQ=255)
ttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGATAACAAAAAACCGGTCa > 1:723856/1‑63 (MQ=255)
ttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGATAACAAAAAACCGGTCa > 1:1072789/1‑63 (MQ=255)
ttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGATAACAAAAAACCGGTCa > 1:2038352/1‑63 (MQ=255)
ttctGCCAGTAGTGAGCAATGCAGCGGATGCACAAAAAGCAGCTGATAACAAAAAACCGGTCa > 1:2730912/1‑63 (MQ=255)
ttctGCCAGTAGTGAGCAATGCAGAGGATGCACAAAAAGCAGCTGATAACAAAAAACCGGTCa > 1:1389426/1‑63 (MQ=255)
|
GAGGATATTACGATGAAAAAAGTATTAGGCGTTATTCTTGGTGGTCTGCTTCTTCTGCCAGTTGTGAGCAATGCAGCGGATGCGCAAAAAGCAGCTGATAACAAAAAACCGGTCAAC > minE/2590938‑2591054
|
| 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
