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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,125,813 |
C→T |
22.4% |
P152L (CCT→CTT) |
rpe → |
D‑ribulose‑5‑phosphate 3‑epimerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,125,813 | 0 | C | T | 22.4%
| 136.5
/ 35.3
| 67 | P152L (CCT→CTT) | rpe | D‑ribulose‑5‑phosphate 3‑epimerase |
| Reads supporting (aligned to +/- strand): ref base C (28/24); new base T (8/7); total (36/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
TGATGGATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTCGACTAGA > W3110S.gb/4125744‑4125882
|
tGATGGATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCt > 1:2164892/1‑71 (MQ=255)
aTGGATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTc < 1:2047813/70‑1 (MQ=255)
aTGGATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCa < 1:469203/71‑1 (MQ=255)
aTGGATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCa < 1:4588347/71‑1 (MQ=255)
tGGATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCa > 1:1740291/1‑70 (MQ=255)
ggATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCaaa > 1:3455987/1‑71 (MQ=255)
gATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCaaa < 1:4439088/70‑1 (MQ=255)
aTAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAaca > 1:2565559/1‑71 (MQ=255)
aTAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAaca < 1:3496162/71‑1 (MQ=255)
tGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGa > 1:3448811/1‑70 (MQ=255)
ggATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGAt > 1:945471/1‑70 (MQ=255)
aTCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATa < 1:736268/64‑1 (MQ=255)
aTCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAACTgcg > 1:1407248/1‑71 (MQ=255)
ccTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTgcgc > 1:124484/1‑70 (MQ=255)
ctgctgATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGcgcg < 1:3853965/70‑1 (MQ=255)
gctgATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAg > 1:3288731/1‑71 (MQ=255)
aTGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAACTGCGCGAAGTAc < 1:825688/70‑1 (MQ=255)
tGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCaaa < 1:3837104/45‑1 (MQ=255)
ccGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCa < 1:1317778/40‑1 (MQ=255)
gTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCaaa > 1:1159043/1‑40 (MQ=255)
tCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAAc < 1:264121/51‑1 (MQ=255)
tCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAAc < 1:1471552/51‑1 (MQ=255)
tCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAg > 1:3625114/1‑60 (MQ=255)
tCAACCCTGGTTTCGGCGGTCAGTCTTTCATTACTCAAACACTGGATAAACTGcgcg < 1:1716061/57‑1 (MQ=255)
cAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTa > 1:1621784/1‑71 (MQ=255)
aaCCCTGGTTTCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTAt > 1:2203428/1‑71 (MQ=255)
aaCCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTa > 1:3305553/1‑70 (MQ=255)
cccTGGTTTCGGCTGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGcgcg < 1:999435/53‑1 (MQ=255)
ccTGGTTTCGTCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcga > 1:344909/1‑71 (MQ=255)
cTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcgac < 1:3560148/71‑1 (MQ=255)
tGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTa > 1:2901659/1‑55 (MQ=255)
tGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcgac > 1:3051251/1‑70 (MQ=255)
tGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcgac > 1:469905/1‑70 (MQ=255)
ggTTTCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcgac > 1:3565810/1‑69 (MQ=255)
gTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTg > 1:725884/1‑44 (MQ=255)
ttCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTc > 1:3516190/1‑71 (MQ=255)
ttCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTc > 1:1877696/1‑71 (MQ=255)
tCGGCGGTCAGTCTTTCATTCTTCAAACACTGGATAAAc > 1:2624732/1‑39 (MQ=255)
tCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCt > 1:898616/1‑71 (MQ=255)
gcggTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAg < 1:3442118/45‑1 (MQ=255)
gTCAGTCTTTCATTCCTCAAACACTGGATAAACTGcgcg < 1:2972847/39‑1 (MQ=255)
gTCAGTCTTTCATTCCTCAAACACTGGATAAACTGcgcg < 1:2707590/39‑1 (MQ=255)
gTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcga > 1:1174775/1‑58 (MQ=255)
gTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCttt < 1:2856406/71‑1 (MQ=255)
gTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCttt < 1:3908355/71‑1 (MQ=255)
tCAGTCTTTCATTCCTCAAACACTGGATAAACTGcgcg < 1:519976/38‑1 (MQ=255)
tCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTg < 1:3971204/71‑1 (MQ=255)
cAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGt > 1:2990005/1‑45 (MQ=255)
cAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGa > 1:768063/1‑71 (MQ=255)
aGTCTTTCATTCTTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGa > 1:693349/1‑70 (MQ=255)
aGTCTTTCATTCTTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGAc < 1:345005/71‑1 (MQ=255)
aGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTAc < 1:1648539/42‑1 (MQ=255)
aGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGa > 1:2416528/1‑70 (MQ=255)
aGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGa < 1:4350823/70‑1 (MQ=255)
gTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAg < 1:4060074/38‑1 (MQ=255)
gTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACa < 1:2769719/71‑1 (MQ=255)
tttCATTCTTCAAACACTGGATAAACTGCGCGAAGTAc < 1:3422406/38‑1 (MQ=255)
tttCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcga > 1:3544888/1‑51 (MQ=255)
tttCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTc > 1:2416914/1‑71 (MQ=255)
tttCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTc > 1:1141756/1‑71 (MQ=255)
tttCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTc > 1:1555702/1‑71 (MQ=255)
tCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTAt > 1:4629609/1‑46 (MQ=255)
tCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTCGa > 1:3357877/1‑71 (MQ=255)
tCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTCGa > 1:83728/1‑71 (MQ=255)
aTTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTCGAc < 1:2213906/70‑1 (MQ=255)
ttcttcAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTCGAc > 1:1760407/1‑69 (MQ=255)
ttCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATcgacga < 1:544886/49‑1 (MQ=255)
ttCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAg < 1:914307/50‑1 (MQ=255)
ccTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTATGAc > 1:4157636/1‑60 (MQ=255)
cTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATc < 1:424816/41‑1 (MQ=255)
cTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTc < 1:3642581/63‑1 (MQ=255)
cTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTCGACTAGa < 1:1329069/70‑1 (MQ=255)
|
TGATGGATAAGCTGGATGTGATCCTGCTGATGTCCGTCAACCCTGGTTTCGGCGGTCAGTCTTTCATTCCTCAAACACTGGATAAACTGCGCGAAGTACGTCGCCGTATCGACGAGTCTGGCTTTGACATTCGACTAGA > W3110S.gb/4125744‑4125882
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
