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 |
1,614,522 |
A→G |
14.3% |
intergenic (‑147/+70) |
eutH ← / ← eutG |
predicted inner membrane protein/predicted alcohol dehydrogenase in ethanolamine utilization |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,614,522 | 0 | A | G | 14.3%
| 91.9
/ 9.3
| 42 | intergenic (‑147/+70) | eutH/eutG | predicted inner membrane protein/predicted alcohol dehydrogenase in ethanolamine utilization |
| Reads supporting (aligned to +/- strand): ref base A (19/17); new base G (4/2); total (23/19) |
| Fisher's exact test for biased strand distribution p-value = 6.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.51e-01 |
CGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATGCGGCAAGCGTCGCATCCGG > minE/1614452‑1614588
|
cGTAGGGTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGa < 1:2687519/71‑1 (MQ=255)
gTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGaa < 1:2877095/71‑1 (MQ=255)
gTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGG‑AATTGCACCGCGCCACTGGCGGATGCGGCGTGAAc > 1:3734222/1‑71 (MQ=255)
cctggCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCGGATGCGGCGTGa > 1:1652619/4‑70 (MQ=14)
ctggCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCGGATTCGGCGTGAAc < 1:3133703/69‑1 (MQ=14)
ggCCGGATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCGGATGCGGCGTGAACGc > 1:3817798/1‑71 (MQ=14)
ccggATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCt > 1:3689378/3‑71 (MQ=17)
cTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCt < 1:1488824/71‑1 (MQ=255)
tGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGc < 1:2296956/68‑1 (MQ=255)
tGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCt > 1:2963760/1‑70 (MQ=255)
gATAAAACGCGGCAAGCGTTGCATCCGGCAACTGCACCGCGCCACTGGCGGATG‑GGCGTGAACGcc > 1:2853831/1‑66 (MQ=17)
aCGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGccc > 1:2719307/1‑71 (MQ=255)
gcgGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTa > 1:661283/1‑71 (MQ=255)
gacAAGCGTCGCATCCGGCATCTGCACCGCGCCACTGGCGGATGCGGCGTGGACGCCTTATCCGCCCTACa > 1:854993/3‑71 (MQ=18)
gacAAGCGTCGCATCCGGCATCTGCACCGCGCCACTGGCGGATGCGGCGTGGACGCCTTATCCGCCCTACa < 1:297707/69‑1 (MQ=18)
aaGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACAtgt > 1:165621/1‑71 (MQ=255)
gCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACAtgtg > 1:1576231/1‑70 (MQ=255)
gCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGc < 1:2718191/71‑1 (MQ=255)
gCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGc < 1:2490576/71‑1 (MQ=255)
gTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTa > 1:3626005/1‑53 (MQ=255)
cGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACAt > 1:3702230/1‑63 (MQ=255)
gCATCCGGCATCTGCACCGCGCCACTGGCGGATGCGGCGTGGACGCCTTATCCGCCCTACATGTGCAAtt < 1:15493/70‑2 (MQ=21)
aTCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCg < 1:1921948/71‑1 (MQ=255)
aTCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCg > 1:3449703/1‑71 (MQ=255)
tCCGGCATCTGCACCGCGCCACTGGCGGATGCGGCGTGGACGCCTTATCCGCCCTACATGTGCAATTCCg > 1:2230178/1‑70 (MQ=18)
cGGCATCTGCACCGCGCCACTGGCGGATGCGGCGTGGACGCCTTATCCGCCCTACATGTGCAATTCCGTaa > 1:3194727/1‑70 (MQ=18)
gCAACTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGc > 1:3748466/1‑48 (MQ=255)
aaTTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTg > 1:443419/1‑71 (MQ=255)
aTTGCTCCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTgg < 1:3856386/71‑1 (MQ=255)
gCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGAt < 1:2509347/70‑1 (MQ=255)
cACCGCGCCACTGGCGGATGCGGCGTGGACGCCTTa > 1:1603914/1‑36 (MQ=255)
cACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGTGTTCCCGTAGGTCGGAt < 1:2057435/69‑1 (MQ=17)
aCCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGTGTTCCCGTAGGTCGGATAAg < 1:2203437/71‑1 (MQ=17)
cgcgCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATTTGTGTTCCCGTAGGTCGGATAAGac < 1:203905/71‑2 (MQ=14)
cgcgCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGAt < 1:1091102/71‑1 (MQ=255)
cgcCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATaa < 1:2515505/66‑1 (MQ=255)
cTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGTGTTCCCGTAGGTCGGATAAGACGCGACaa < 1:899545/71‑1 (MQ=11)
cTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGt < 1:2281915/50‑1 (MQ=40)
cTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATGCGGc > 1:1167919/1‑69 (MQ=255)
gCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATGCGGCAAGc < 1:2220183/70‑1 (MQ=40)
ggATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATGCGGCAAGCGTc > 1:2382209/1‑71 (MQ=39)
aTGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATg > 1:3285937/1‑58 (MQ=40)
ggcgTGAACGCCTTATCCGCCCTACATGTGTGTTCCCGTAGGTCGGATaa < 1:1779004/50‑1 (MQ=11)
agTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATGCGGCAAGCGTCGCATCCgg > 1:2324430/2‑71 (MQ=39)
gTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATGCGGCAAGCGTCGCATCCgg > 1:1865315/1‑70 (MQ=40)
|
CGTAGGCTGGATAAGACGCGGCAAGCGTCGCATCCGGCAATTGCACCGCGCCACTGGCGGATGCGGCGTGAACGCCTTATCCGCCCTACATGTGCAATCCCGTAGGCTGGATAAGATGCGGCAAGCGTCGCATCCGG > minE/1614452‑1614588
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
