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 |
2,587,208 |
A→G |
22.6% |
G23G (GGT→GGC) |
mdtF ← |
multidrug transporter, RpoS‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,587,208 | 0 | A | G | 22.6%
| 157.0
/ 38.0
| 119 | G23G (GGT→GGC) | mdtF | multidrug transporter, RpoS‑dependent |
| Reads supporting (aligned to +/- strand): ref base A (16/76); new base G (10/17); total (26/93) |
| Fisher's exact test for biased strand distribution p-value = 3.71e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 119 total aligned reads displayed.
GTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATA > minE/2587146‑2587267
|
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:1052495/69‑1 (MQ=255)
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:816955/69‑1 (MQ=255)
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:2154457/69‑1 (MQ=255)
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:1699072/69‑1 (MQ=255)
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:2396339/69‑1 (MQ=255)
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:163359/69‑1 (MQ=255)
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:1756781/69‑1 (MQ=255)
gTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCa < 1:434532/69‑1 (MQ=255)
aaTGTTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:1692398/69‑1 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCaa > 1:3169824/1‑68 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:2552770/69‑1 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg > 1:3338952/1‑69 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg > 1:1756412/1‑69 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg > 1:2562701/1‑69 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:3336128/69‑1 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:1832801/69‑1 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:2452526/69‑1 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg > 1:2110578/1‑69 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg > 1:2116682/1‑69 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg > 1:2376575/1‑69 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:1437098/69‑1 (MQ=255)
aaTGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg > 1:513460/1‑69 (MQ=255)
ggTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGcat < 1:1481198/69‑1 (MQ=255)
gTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGcat > 1:2526830/1‑68 (MQ=255)
gTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGcat < 1:732773/68‑1 (MQ=255)
gTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGcat > 1:1188125/1‑68 (MQ=255)
gTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGcat > 1:880318/1‑68 (MQ=255)
tGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat < 1:2986101/69‑1 (MQ=255)
tGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat < 1:1634151/69‑1 (MQ=255)
tGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat < 1:1649179/69‑1 (MQ=255)
tGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat < 1:580150/69‑1 (MQ=255)
tGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat < 1:1825029/69‑1 (MQ=255)
tGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat < 1:334464/69‑1 (MQ=255)
ggCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat < 1:1800215/68‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCATACCACCTGCAAg < 1:755613/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:641362/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:2564471/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:511297/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:2880703/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:3409925/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:2902838/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:3409359/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:1027396/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:1373008/50‑1 (MQ=255)
tGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:1460293/50‑1 (MQ=255)
gATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATCATAATGGCAAGTAc < 1:3195246/67‑1 (MQ=255)
gATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTa < 1:2852178/66‑1 (MQ=255)
gATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTAc < 1:2278354/67‑1 (MQ=255)
gATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTAc < 1:1826818/67‑1 (MQ=255)
cTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAgg > 1:1852440/1‑68 (MQ=255)
tGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAg < 1:262651/41‑1 (MQ=255)
gcgcAACCGGTAAGTTCATGATCGCCAGACCACCTGCAA‑CATCATAATAATGGCAAGTACCCAGGCaaa < 1:2154769/69‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaaa < 1:2754178/68‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaaa < 1:2992573/68‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaaa < 1:254436/68‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaaa < 1:855295/68‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:430933/67‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:147311/67‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:1770969/67‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:923774/67‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:3176617/67‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:20979/67‑1 (MQ=255)
cAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:2591188/67‑1 (MQ=255)
ggTAAGTTCATGATCGCCAGACCACCTGCAAGCATCataat > 1:502742/1‑41 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:345685/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:1733845/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:2459207/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:1008256/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:1638263/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:3106149/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:1708900/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:1214469/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCg > 1:1437078/1‑68 (MQ=255)
aaGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:2725146/59‑1 (MQ=255)
aaGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:1805873/59‑1 (MQ=255)
aaGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCaaa < 1:2735490/59‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:2105576/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:1379362/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:58615/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:79025/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:1099690/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:89422/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:2287017/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:458992/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:1820436/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:3336251/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:1686299/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:3181973/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:2996399/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:1729332/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:2960998/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAAcc < 1:2706523/56‑1 (MQ=255)
tGATCGCCAGACCGCCTGCAAGCATCATAATAATGGCAAGTA‑‑CAGGCAAAAAcc < 1:1475236/54‑1 (MQ=255)
gATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATaa < 1:1530378/68‑1 (MQ=255)
gATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATaa < 1:1551633/68‑1 (MQ=255)
gATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATaa < 1:1660912/68‑1 (MQ=255)
gATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATaa < 1:661810/68‑1 (MQ=255)
gATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATaa < 1:3283537/68‑1 (MQ=255)
gATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATaa < 1:2593759/68‑1 (MQ=255)
gATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATaa < 1:2296039/68‑1 (MQ=255)
|
GTAATGGTCGGTGGCGCAATCTGCGGATACTGCGCAACCGGTAAGTTCATGATCGCCAGACCACCTGCAAGCATCATAATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATA > minE/2587146‑2587267
|
| 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
