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 |
2,086,447 |
A→G |
20.4% |
K74K (AAA→AAG) |
yqjG → |
predicted S‑transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,086,447 | 0 | A | G | 20.4%
| 95.0
/ 16.5
| 68 | K74K (AAA→AAG) | yqjG | predicted S‑transferase |
| Reads supporting (aligned to +/- strand): ref base A (23/31); new base G (9/5); total (32/36) |
| Fisher's exact test for biased strand distribution p-value = 2.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.26e-01 |
ATCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTATTTCCGTTTCCGT > minE/2086383‑2086482
|
aTCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCACACCGCACGCTGATCATGCGTAAGCTCa < 1:736083/69‑1 (MQ=255)
aTCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCACACCGCACGCTGATCATGCGTAAGCTCa < 1:2356178/69‑1 (MQ=255)
aTCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCACACCGCACGCTGATCATGCGTAAGCTCa < 1:2088646/69‑1 (MQ=255)
aTCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCACACCGCACGCTGATCATGCGTAAGCTCa < 1:3341617/69‑1 (MQ=255)
aTCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCACACCGCACGCTGATCATGCGTAAGCTCa < 1:2695811/69‑1 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:3286326/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:2287064/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:2307985/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:2672779/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:2862125/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:1961304/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:3132640/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:176701/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:1629300/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:3294415/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:3380941/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:1368484/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:428489/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:902186/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:1136321/1‑69 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCa > 1:911021/1‑68 (MQ=255)
tCGTTATCATCTCTATGTTTCACTCACCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:3209422/1‑69 (MQ=255)
cGTTATAATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCaa > 1:1129350/1‑68 (MQ=255)
gTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAg < 1:2695212/69‑1 (MQ=255)
gTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAg < 1:205515/69‑1 (MQ=255)
tATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAgg < 1:136365/68‑1 (MQ=255)
tATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAgg < 1:2826920/68‑1 (MQ=255)
tATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGa > 1:3267349/1‑69 (MQ=255)
tATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGa > 1:2733958/1‑69 (MQ=255)
tATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGa > 1:2034952/1‑69 (MQ=255)
tttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGtt < 1:3280258/67‑1 (MQ=255)
tttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGtt < 1:1609419/67‑1 (MQ=255)
tttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGtt < 1:1309249/67‑1 (MQ=255)
tttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGtt < 1:672507/67‑1 (MQ=255)
tttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGtt < 1:2899456/67‑1 (MQ=255)
tttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGtt < 1:886676/67‑1 (MQ=255)
ttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAt > 1:2847203/1‑69 (MQ=255)
ttCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTCTAt > 1:75260/1‑69 (MQ=255)
tCACTCGCCTGCCCGTGGGCGCACCGTACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtt < 1:2361702/69‑1 (MQ=255)
tCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtt < 1:2420371/69‑1 (MQ=255)
tCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtt < 1:895914/69‑1 (MQ=255)
tCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtt < 1:2718161/69‑1 (MQ=255)
tCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtt < 1:3033062/69‑1 (MQ=255)
tCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtt < 1:1804032/69‑1 (MQ=255)
cGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTATttccgtttccgt < 1:2264929/67‑1 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccgt > 1:399766/1‑58 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccgt > 1:768848/1‑58 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccgt > 1:1395387/1‑58 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccgt > 1:787209/1‑58 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccgt > 1:2326437/1‑58 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccgt > 1:2798603/1‑58 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccgt > 1:295853/1‑58 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTCAAAGGACTGGAACCGTTTAtttccg > 1:2560376/1‑57 (MQ=255)
gggCACACCGCACGCTGATCATGCGTAAGCTAAAAGGACt > 1:695683/1‑40 (MQ=25)
ggCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:3013778/62‑1 (MQ=255)
gcaccgcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgt < 1:747816/54‑1 (MQ=255)
gcaccgcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgt < 1:845790/54‑1 (MQ=255)
gcaccgcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgt < 1:1551110/54‑1 (MQ=255)
gcaccgcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgt < 1:585069/54‑1 (MQ=255)
gcaccgcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgt < 1:562192/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:1361624/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:2642759/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:1765953/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:639891/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:2030563/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:461391/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:2512966/54‑1 (MQ=255)
gcacGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTAtttccgtttccg < 1:2216952/54‑1 (MQ=255)
|
ATCGTTATCATCTCTATGTTTCACTCGCCTGCCCGTGGGCGCACCGCACGCTGATCATGCGCAAACTCAAAGGACTGGAACCGTTTATTTCCGTTTCCGT > minE/2086383‑2086482
|
| 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
