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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,046,323 |
G→A |
46.5% |
G38D (GGC→GAC) |
livG → |
leucine/isoleucine/valine transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,046,323 | 0 | G | A | 46.5%
| 8.0
/ 56.6
| 43 | G38D (GGC→GAC) | livG | leucine/isoleucine/valine transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (7/16); new base A (12/8); total (19/24) |
| Fisher's exact test for biased strand distribution p-value = 6.93e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.20e-01 |
GGCCTGCTGGCGGTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCGGATTCTACAAACCCACC > W3110S.gb/4046259‑4046384
|
ggcCTGCTGGCGGTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTaa < 1:2131217/71‑1 (MQ=255)
gcCTGCTGGCGGTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTaa < 1:3952231/70‑1 (MQ=255)
ctgctgGCGGTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCt < 1:1482255/66‑1 (MQ=255)
ctgctgGCGGTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTaa > 1:3479878/1‑68 (MQ=255)
ggTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCgg > 1:1249365/1‑69 (MQ=255)
gTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGaaa < 1:2293734/71‑1 (MQ=255)
gTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGaaa < 1:2056839/71‑1 (MQ=255)
gAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGaaaaa > 1:2578873/1‑71 (MQ=255)
caacGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTaa > 1:3457890/1‑54 (MQ=255)
caacGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCa > 1:3037387/1‑71 (MQ=255)
caacGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCa > 1:2924482/1‑71 (MQ=255)
aacGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAAc < 1:1785982/68‑1 (MQ=255)
aacGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAAc < 1:1926956/68‑1 (MQ=255)
tCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGACCTAAc > 1:3435095/1‑50 (MQ=255)
tCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAAc < 1:3513726/50‑1 (MQ=255)
tCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAAc < 1:2652634/50‑1 (MQ=255)
aaTCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCACGGtttt > 1:1849013/1‑71 (MQ=255)
aTCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGttttt < 1:155644/71‑1 (MQ=255)
ttGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGaaaa < 1:2127343/56‑1 (MQ=255)
ttGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGaaa < 1:778928/55‑1 (MQ=255)
ttGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGaaa < 1:2550317/55‑1 (MQ=255)
ttGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGACCTAACGGTGCCGGaaa < 1:2562402/55‑1 (MQ=255)
ttGAACTGTACCCGCAGGAGATCGACTCGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTaa > 1:1177538/1‑70 (MQ=255)
gAACTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCACGGTTTTTa < 1:1309788/67‑1 (MQ=255)
cTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCt < 1:2115228/36‑1 (MQ=255)
cTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCt < 1:540220/36‑1 (MQ=255)
cTGTACCCGCAGGAGATCGTCTCGTTAATCGACCCt < 1:3673674/36‑1 (MQ=255)
tGTACCCGCAGGAGATCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTc > 1:2871212/1‑69 (MQ=255)
gTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTaa > 1:2416125/1‑36 (MQ=255)
gTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTaa > 1:3925625/1‑36 (MQ=255)
gTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTaa > 1:3517036/1‑36 (MQ=255)
cccGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGAcag < 1:3905408/71‑3 (MQ=255)
cccGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCg < 1:2656609/71‑1 (MQ=255)
aGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCGGATTc < 1:1298018/71‑1 (MQ=255)
gaTCGTCTCGTTAATCGACCCTAACGGTGCCGGaaaaa > 1:1152106/1‑38 (MQ=255)
gaTCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCa > 1:2971139/1‑41 (MQ=255)
gaTCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCa > 1:1919024/1‑41 (MQ=255)
gaTCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCa > 1:3964600/1‑41 (MQ=255)
aTCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCGGATTCTACaa < 1:3503700/71‑1 (MQ=255)
tCGTCTCGTTAATCGACCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCGGATTCTACaa < 1:930828/70‑1 (MQ=255)
tctcGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCGGATTCTACAAAccc < 1:1839596/71‑1 (MQ=255)
gTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCGGATTCTACAAACCCAcc > 1:1005348/1‑70 (MQ=255)
aaTCGACCCTAACGGTGCCGGAAAAACCACGGTTTTTAAc > 1:483402/1‑40 (MQ=255)
|
GGCCTGCTGGCGGTGAACAACGTCAATCTTGAACTGTACCCGCAGGAGATCGTCTCGTTAATCGGCCCTAACGGTGCCGGAAAAACCACGGTTTTTAACTGTCTGACCGGATTCTACAAACCCACC > W3110S.gb/4046259‑4046384
|
| 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
