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 |
904,059 |
C→A |
48.0% |
R10R (CGC→CGA) |
ycjP → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 904,059 | 0 | C | A | 48.0%
| 16.1
/ 80.0
| 75 | R10R (CGC→CGA) | ycjP | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (24/15); new base A (19/17); total (43/32) |
| Fisher's exact test for biased strand distribution p-value = 4.90e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATTCTGCTGACCAGGAAACGGGTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTTGTGATGCT > minE/903999‑904124
|
aTTCTGCTGACCAGGAAACGGGTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGtt > 1:626543/1‑68 (MQ=255)
aTTCTGCTGACCAGGAAACGGGTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGtt > 1:1970961/1‑68 (MQ=255)
aTTCTGCTGACCAGGAAACGGGTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGt < 1:1854982/67‑1 (MQ=255)
ggTGAACCTCAATGTCAACAAATAAACGCACACTCAGTCGCATCGGtttt > 1:647657/1‑50 (MQ=255)
ggTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGtttt > 1:1526893/1‑50 (MQ=255)
ggTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGtttt > 1:1834867/1‑50 (MQ=255)
ggTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGtttt > 1:492016/1‑50 (MQ=255)
ggTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGtttt > 1:496042/1‑50 (MQ=255)
aaCCTCAATGGCAACAAATAAAGGCACACTCAGTCGc > 1:2410185/1‑37 (MQ=255)
aaCCTCAATGGCAACAAATAAACGCACACTCAGTCGc > 1:989281/1‑37 (MQ=255)
aaCCTCAATGGCAACAAATAAACGCACACTCAGTCGc > 1:600858/1‑37 (MQ=255)
aaCCTCAATGGCAACAAATAAACGCACACTCAGTCGc > 1:3151112/1‑37 (MQ=255)
aaCCTCAATGGCAACAAATAAACGCACACTCAGTCGc > 1:2216102/1‑37 (MQ=255)
aaCCTCAATGGCAACAAATAAACGCACACTCAGTCGc > 1:2352726/1‑37 (MQ=255)
aaCCTCAATGGCAACAAATAAACGCACACTCAGTCGc > 1:163486/1‑37 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCt > 1:172485/1‑58 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt > 1:2447197/1‑60 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:656376/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt > 1:2205986/1‑60 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt > 1:2451087/1‑60 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt > 1:3029606/1‑60 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:2318117/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:3273051/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:334767/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:41532/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:454599/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:1815008/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:1582559/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt > 1:1525506/1‑60 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt < 1:1321280/60‑1 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGt > 1:1282128/1‑60 (MQ=255)
cAATGGCAACAAATAAACGCACACTCAGTCGCATCGG‑TTTTACTGCGGGCTGGCGCTGt < 1:2274608/59‑1 (MQ=255)
aaTGGCAACAAATAAACGCACACTCAGTCGCAGCGGTTTTTACTGCGGGCTGGCGCTGt < 1:1113140/59‑1 (MQ=255)
gCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACg > 1:3011531/1‑69 (MQ=255)
gCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACg > 1:988357/1‑69 (MQ=255)
gCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACg > 1:495495/1‑69 (MQ=255)
gCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACg > 1:1319965/1‑69 (MQ=255)
gCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACg > 1:1461278/1‑69 (MQ=255)
gCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACg > 1:2358225/1‑69 (MQ=255)
gCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACg > 1:3274634/1‑69 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATGACGCTGt < 1:2194469/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:2798268/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:2038905/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:2596675/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:1631911/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:1085684/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:24437/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:1677337/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:1077505/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:2254150/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:197231/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:1268084/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:607885/68‑1 (MQ=255)
aaaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCAACATCACGCTGt < 1:107798/68‑1 (MQ=255)
aaTAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:2391445/67‑1 (MQ=255)
tAAACGCACACTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:2138786/65‑1 (MQ=255)
acTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt < 1:2880855/69‑1 (MQ=255)
acTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt < 1:3001546/69‑1 (MQ=255)
acTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt < 1:2202703/69‑1 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGt < 1:180883/56‑1 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTcc > 1:1699206/1‑60 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:2330703/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:928682/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:76540/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:751379/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:1951516/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:1794232/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:1211635/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:2181551/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:1789873/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:1758546/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:2830527/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:1393771/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:391604/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:37842/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:163255/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:2714626/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:2971888/1‑69 (MQ=255)
acTCAGTCGAATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTtgt > 1:2913265/1‑69 (MQ=255)
tCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTTGTGATGCt > 1:1507114/1‑69 (MQ=255)
tCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTTGTGATGCt > 1:2768619/1‑69 (MQ=255)
tCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTTGTGATGCt > 1:1821865/1‑69 (MQ=255)
|
ATTCTGCTGACCAGGAAACGGGTGAACCTCAATGGCAACAAATAAACGCACACTCAGTCGCATCGGTTTTTACTGCGGGCTGGCGCTGTTTCTCATCATCACGCTGTTTCCATTTTTTGTGATGCT > minE/903999‑904124
|
| 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
