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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,883,198 |
A→G |
22.5% |
F429L (TTC→CTC) |
rumA ← |
23S rRNA (uracil‑5)‑methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,883,198 | 0 | A | G | 22.5%
| 74.5
/ 20.9
| 40 | F429L (TTC→CTC) | rumA | 23S rRNA (uracil‑5)‑methyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (13/18); new base G (6/3); total (19/21) |
| Fisher's exact test for biased strand distribution p-value = 2.65e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.44e-01 |
AACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCGCGCAATGGTA > minE/1883128‑1883265
|
aaCCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaa < 1:192118/71‑1 (MQ=255)
aaCAATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaa < 1:1478940/71‑1 (MQ=255)
ccATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaa > 1:1587042/1‑69 (MQ=255)
tCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCTAGAGAAg > 1:2167994/1‑66 (MQ=255)
tCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAGAAg > 1:1976482/1‑66 (MQ=255)
ctctCCTTTAGGTACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATc < 1:1535057/71‑1 (MQ=255)
ctctCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATc < 1:336605/71‑1 (MQ=255)
ctctCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATc < 1:753933/71‑1 (MQ=255)
ccTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaaaa > 1:832375/1‑59 (MQ=255)
ccTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaaaa > 1:1323113/1‑59 (MQ=255)
cTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGa < 1:1442828/68‑1 (MQ=255)
cTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTc > 1:1886353/1‑71 (MQ=255)
tttAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGt < 1:729129/59‑1 (MQ=255)
ttAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaa < 1:1926004/54‑1 (MQ=255)
aGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCAta > 1:750280/1‑61 (MQ=255)
aGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCAt > 1:929322/1‑61 (MQ=255)
aGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATc > 1:1739600/1‑62 (MQ=255)
aCCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaa < 1:727212/48‑1 (MQ=255)
aCCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaa < 1:2051491/48‑1 (MQ=255)
aCCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCa < 1:1095673/65‑1 (MQ=255)
aCCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCa < 1:147322/65‑1 (MQ=255)
cAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGaa < 1:1812781/46‑1 (MQ=255)
cAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAGAAGTACCATCGATTCCa < 1:607400/63‑1 (MQ=255)
cAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAGAAGTACCATCGATTCCa < 1:1287487/63‑1 (MQ=255)
aGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGTAAAGTACCATCGATTc < 1:796254/60‑1 (MQ=255)
ccTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCgtg < 1:1660006/70‑1 (MQ=255)
cTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAGAAGTACCATCGATTCCAGATGTCCCgtgtg > 1:1419669/1‑71 (MQ=255)
cTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAGAAGTACCATCGATTCCAGATGTCCCgtgtg > 1:1930120/1‑71 (MQ=255)
cGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAGAAGTACCATCGATTCCAGa > 1:1731058/1‑56 (MQ=255)
gAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCgtgtg > 1:661644/1‑66 (MQ=255)
gAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTggg > 1:1292422/1‑70 (MQ=255)
aaTCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTAc < 1:1213410/40‑1 (MQ=255)
aTCGGCAAATCGCAACTATTTAACGCGCGAGaaaa > 1:1556475/1‑35 (MQ=255)
aaTCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTc < 1:1784565/41‑1 (MQ=255)
tCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCa < 1:120541/41‑1 (MQ=255)
tCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCa < 1:2176973/41‑1 (MQ=255)
cGCAACTATTTAACGCGCGAGAGAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCAt > 1:1811235/1‑71 (MQ=255)
aaCTATTTAACGCGCGAGAAAAGTACCATCGATTCCa < 1:1281355/37‑1 (MQ=255)
aCTATTTAACGCGCGAGAAAAGAACCATCGATTCCAGATGTCCCgtgtgt > 1:325842/1‑50 (MQ=255)
aTTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGc > 1:1867361/1‑62 (MQ=255)
aTTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGt > 1:370666/1‑71 (MQ=255)
aTTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGt > 1:1447195/1‑71 (MQ=255)
tAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTcgc > 1:2120895/1‑71 (MQ=255)
tAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTcgc > 1:1188574/1‑71 (MQ=255)
aCGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCgcgc < 1:2106602/71‑1 (MQ=255)
aCGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCgcgc < 1:106860/71‑1 (MQ=255)
cgcgAGAGAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCGCGCAAt < 1:101776/71‑1 (MQ=255)
gcgAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCTCGCAATg < 1:148450/71‑1 (MQ=255)
gagaAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCGCGCAATGGt < 1:1929028/71‑1 (MQ=255)
gaAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCGCGCAATGGta > 1:20072/1‑70 (MQ=255)
|
AACCATCGTCCTCTCCTTTAGGGACCAGACCTGCCGAAATCGGCAAATCGCAACTATTTAACGCGCGAGAAAAGTACCATCGATTCCAGATGTCCCGTGTGTGGGAACATATCCAGCATCGCCAGTCGCGCAATGGTA > minE/1883128‑1883265
|
| 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
