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 |
|
A1 F999 I1 R1
|
225 |
156.4 |
11709729 |
83.8% |
9812752 |
75.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,737,956 |
2 bp→CG |
coding (623‑624/1254 nt) |
avtA → |
alanine‑alpha‑ketoisovalerate transaminase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,737,956 | 0 | G | C | 99.2%
| 346.8
/ ‑5.4
| 131 | G208A (GGC→GCG) | avtA | alanine‑alpha‑ketoisovalerate transaminase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base C (66/64); minor base T (1/0); total (67/64) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01 |
| * | NC_000913 | 3,737,957 | 0 | C | G | 99.2%
| 351.6
/ ‑4.8
| 131 | G208A (GGC→GCG) | avtA | alanine‑alpha‑ketoisovalerate transaminase |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base G (66/64); total (67/64) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.35e-01 |
Only 100 of 131 total aligned reads displayed.
GTCTCCCGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGGCAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCTTCA > NC_000913/3737886‑3738024
||
ctcCCGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCaa < 1:210598/76‑1 (MQ=255)
ctcCCGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCaa > 2:3739364/1‑76 (MQ=255)
tcCCGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAac > 1:4097049/1‑76 (MQ=255)
tcCCGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGAGCTGGCGAATCaaa > 1:2880339/1‑75 (MQ=255)
ccccGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAac < 1:3324685/75‑1 (MQ=255)
cccGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCaaac > 2:5385068/1‑74 (MQ=255)
cccGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAaca < 1:918672/76‑1 (MQ=255)
cccGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAaca > 1:3705204/1‑76 (MQ=255)
ccGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAacac < 1:5630784/76‑1 (MQ=255)
ccGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGATGAAGCTTGACGCGCTGGCGAATCAacac > 2:2995605/1‑76 (MQ=255)
cGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGGTGCTGAAGCTTGACGCGCTGGCGAATCAACACg > 1:5150302/1‑76 (MQ=255)
ggCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACgg > 2:1855352/1‑76 (MQ=255)
ggCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACgg > 1:1672184/1‑76 (MQ=255)
ggCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACgg < 1:2247932/76‑1 (MQ=255)
ggCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACgg < 2:4683454/76‑1 (MQ=255)
gCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGc < 2:2058064/76‑1 (MQ=255)
ccGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCa > 1:5273091/1‑76 (MQ=255)
cgccgaATGCAACAGGCCATCTTATTACTGACGAAGCGTTGCTGAATCTTGTCGCGCCGGCGCATCAACACGGCAt < 1:5252873/73‑1 (MQ=255)
acgaATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTc > 2:1955825/1‑76 (MQ=255)
acgaATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTc > 2:3326839/1‑76 (MQ=255)
acgaATCCAAAAGGCAATGCGATTACTGACGAAGAGATGCTGAAGCATGACGCGCTCGCGAATCAACACGGCAATc > 1:1911764/1‑76 (MQ=255)
cgaATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATAAACACCGCATccc > 2:5733272/1‑76 (MQ=255)
gaATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCg > 1:5461096/1‑76 (MQ=255)
gaATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCg > 2:4344783/1‑76 (MQ=255)
gaATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCg > 2:5812822/1‑76 (MQ=255)
aacccaccaGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTTACTCGCTGGCGGATCAACACGGCATTCCGc < 1:4305448/73‑1 (MQ=255)
aaTCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGATGCTTGAGGCGGTGGCGACTCACCACGGCATTCGGc < 2:4003174/76‑1 (MQ=255)
aaTCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCCTTCCGc > 2:3977670/1‑76 (MQ=255)
aaTCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCAt < 2:424392/71‑1 (MQ=255)
aaTCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGc > 2:4932763/1‑76 (MQ=255)
aTCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCt < 1:2737409/76‑1 (MQ=255)
aTCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCt > 2:2085689/1‑76 (MQ=255)
tCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTg < 1:640820/76‑1 (MQ=255)
tCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTg < 1:231046/76‑1 (MQ=255)
cAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGt < 1:1790268/76‑1 (MQ=255)
cAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGt < 2:1488446/76‑1 (MQ=255)
aaCAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtg > 2:3251987/1‑76 (MQ=255)
aaCAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtg > 2:3247134/1‑76 (MQ=255)
aCAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtga < 1:5529878/76‑1 (MQ=255)
aGGCAATGGGATTACTGACGAAGAGTGGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtgatt < 2:263738/76‑1 (MQ=255)
ggCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtgattg < 2:508383/76‑1 (MQ=255)
gCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtgattga < 1:3748329/76‑1 (MQ=255)
gCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtgattga > 2:5730382/1‑76 (MQ=255)
cAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGtgattgat < 1:4207692/76‑1 (MQ=255)
aaTGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATa > 2:3256989/1‑76 (MQ=255)
aaTGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATa > 2:3697414/1‑76 (MQ=255)
aaTGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATa > 1:977817/1‑76 (MQ=255)
aTGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATaa > 1:4030296/1‑76 (MQ=255)
aTGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATaa > 1:3219483/1‑76 (MQ=255)
aTGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGCGGTTCATaa > 2:5580591/1‑76 (MQ=255)
tgtgATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGGGATTGATaaa > 1:627291/1‑75 (MQ=255)
gtgATTGCTGACGAAGAGTTGCTGAAGCTTTACGCGCTGGCGAATGAGCACGGCATTCCGCTGGTGATTGATAACg < 2:1378916/76‑1 (MQ=255)
tgATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGc < 2:2510926/76‑1 (MQ=255)
aTTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCtt > 1:1312174/1‑76 (MQ=255)
aTTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCtt > 2:1356593/1‑76 (MQ=255)
aTTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCtt < 1:3329280/76‑1 (MQ=255)
aTTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCtt < 1:1908966/76‑1 (MQ=255)
ttACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCCTa > 2:452499/1‑76 (MQ=255)
tACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTAt < 1:3392200/76‑1 (MQ=255)
tACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTAt < 1:3326839/76‑1 (MQ=255)
tACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTAt < 1:4885132/76‑1 (MQ=255)
tcTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATg < 2:4633867/75‑1 (MQ=255)
aCTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTCTg > 2:5843907/1‑76 (MQ=255)
cTGACGAAGAGTTGCTCGAGCTTGACGAGCTTGTCAAGCGACACGGCATTCCGCTGGGGATTTATAACGCTTAttg > 1:1662048/1‑74 (MQ=255)
tGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGc < 2:1622967/76‑1 (MQ=255)
tGACGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGc < 1:3543214/76‑1 (MQ=255)
ggcGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCg < 2:5004043/74‑1 (MQ=255)
aCGAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGt > 1:370603/1‑76 (MQ=255)
gAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTcc < 1:2467028/76‑1 (MQ=255)
gAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTcc > 2:4551717/1‑76 (MQ=255)
gAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTcc > 1:1455172/1‑76 (MQ=255)
gAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTcc > 2:620849/1‑76 (MQ=255)
gAAGAGTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTcc > 2:1929151/1‑76 (MQ=255)
agagTTGCTTAAGCTTGCCGCGCTGGCGACTCGACACGGCATTCCGCTGGTGCTTGATAACGCTTATGGCGTCCCg < 1:2010975/76‑1 (MQ=255)
agagTTGCTGAAGCGTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTccca < 2:3191183/76‑2 (MQ=255)
gagTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGt > 2:5056179/1‑76 (MQ=255)
gagTTGCTGAACCTTGACGCGCTGTCGACTCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGt < 1:3513154/76‑1 (MQ=255)
agTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGtt < 1:3626146/76‑1 (MQ=255)
agTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGtt > 2:1191065/1‑76 (MQ=255)
gTTGCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTc < 1:1245754/76‑1 (MQ=255)
gCTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCg < 1:3585519/76‑1 (MQ=255)
cTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCgg < 2:1312174/76‑1 (MQ=255)
cTGAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCgg < 2:4241114/76‑1 (MQ=255)
tGAAGCTTGACGCGCTGGCGAATCAACACGGCCTTCCGCTGGTGAGTGATAACTCATATGGCGTCCCGTTACCggg > 1:3233422/1‑76 (MQ=255)
tGAAGCTTGACGAGCTGGCGAATCAACACGGCATTCCGCTGGCGAGTGAGAACGCTTATGGCGACACGTTCCCcgg > 1:279579/1‑76 (MQ=255)
gAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGt < 2:2414395/76‑1 (MQ=255)
gAAGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGt < 1:86810/76‑1 (MQ=255)
aaGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTa < 2:4097048/76‑1 (MQ=255)
aGCTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTat > 1:4613989/1‑76 (MQ=255)
cTTGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTatca < 2:2285789/76‑1 (MQ=255)
ttGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTatcat > 1:2762781/1‑76 (MQ=255)
ttGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTatcat > 2:2488018/1‑76 (MQ=255)
ttGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTatcat < 1:5642364/76‑1 (MQ=255)
ctGACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTatcat < 2:1275734/75‑1 (MQ=255)
gACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCt > 1:2677149/1‑76 (MQ=255)
gACGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCt < 2:4833801/76‑1 (MQ=255)
aCGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCtt > 1:1566481/1‑76 (MQ=255)
aCGCGCTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCtt < 1:2633240/76‑1 (MQ=255)
cgcgcgGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCTTc < 2:101569/76‑1 (MQ=255)
gcgcTGGCGAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCTTCa > 2:3627620/1‑76 (MQ=255)
||
GTCTCCCGGCCGACGAATCCAACAGGCAATGTGATTACTGACGAAGAGTTGCTGAAGCTTGACGCGCTGGGCAATCAACACGGCATTCCGCTGGTGATTGATAACGCTTATGGCGTCCCGTTCCCGGGTATCATCTTCA > NC_000913/3737886‑3738024
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
