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 |
1,257,376 |
T→C |
26.9% |
F7L (TTT→CTT) |
yecP → |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,257,376 | 0 | T | C | 26.9%
| 80.5
/ 36.8
| 52 | F7L (TTT→CTT) | yecP | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (18/20); new base C (5/9); total (23/29) |
| Fisher's exact test for biased strand distribution p-value = 5.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01 |
CCAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCT > minE/1257307‑1257441
|
ccAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACt < 1:1413934/70‑1 (MQ=255)
cAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACttt < 1:997033/71‑1 (MQ=255)
cAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACttt < 1:681098/71‑1 (MQ=255)
aGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACctt > 1:223717/1‑70 (MQ=255)
gCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTAt > 1:336635/1‑70 (MQ=255)
cTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATtc < 1:1531343/71‑1 (MQ=255)
cTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATAGACTTTGGTAACCTTTAtt < 1:1880113/70‑1 (MQ=255)
tAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTctct > 1:1956749/1‑71 (MQ=255)
aaCTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTctct < 1:1247256/70‑1 (MQ=255)
aCTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGa < 1:451966/71‑1 (MQ=255)
aCTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGa < 1:1689455/71‑1 (MQ=255)
tttGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGa > 1:609898/1‑69 (MQ=255)
ttGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTg > 1:1191614/1‑71 (MQ=255)
gTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGcc < 1:1726217/70‑1 (MQ=255)
gtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAatca < 1:770188/70‑1 (MQ=255)
gtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAatca < 1:1960892/70‑1 (MQ=255)
cATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCttt < 1:1316987/71‑1 (MQ=255)
ttAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATtct < 1:822858/47‑1 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTa > 1:1453519/1‑41 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTgaca > 1:1937168/1‑71 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTcaca > 1:294509/1‑71 (MQ=255)
aaaGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTAt > 1:435537/1‑41 (MQ=255)
aaaGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTAt > 1:1309312/1‑41 (MQ=255)
aaaGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTca > 1:1825870/1‑68 (MQ=255)
gCAGAGGACGCTGCATGATCGACTTTGGTAACttt < 1:1335592/35‑1 (MQ=255)
ggACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa < 1:163534/71‑1 (MQ=255)
gACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa < 1:1144161/70‑1 (MQ=255)
gACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTg < 1:195771/38‑1 (MQ=255)
gACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa > 1:1059900/1‑70 (MQ=255)
gCTGCATGATCGACTTTTGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACg < 1:1985465/71‑1 (MQ=255)
gCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACg < 1:695214/71‑1 (MQ=255)
gCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACg < 1:473453/71‑1 (MQ=255)
tGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCaa < 1:1448476/41‑1 (MQ=255)
tGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCaa < 1:316927/41‑1 (MQ=255)
cATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGc > 1:1331755/1‑71 (MQ=255)
aTGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGcc > 1:1258800/1‑71 (MQ=255)
tGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAatc < 1:783556/42‑1 (MQ=255)
tGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAatc > 1:1440982/1‑42 (MQ=255)
tGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAatc > 1:341449/1‑42 (MQ=255)
aTCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACg > 1:1270333/1‑63 (MQ=255)
aTCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACg > 1:400264/1‑63 (MQ=255)
tCGACTATGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCcgcg > 1:283351/1‑71 (MQ=255)
cGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTca > 1:396451/1‑46 (MQ=255)
gACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:1304099/71‑1 (MQ=255)
gACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:263943/71‑1 (MQ=255)
gACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:1397412/71‑1 (MQ=255)
aCTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCttt < 1:1767500/42‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTcac < 1:1564928/43‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTcac < 1:1087574/43‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTcac < 1:1370577/43‑1 (MQ=255)
tGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCacac > 1:555171/1‑43 (MQ=255)
tGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCacac > 1:117504/1‑43 (MQ=255)
tGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa > 1:2094162/1‑66 (MQ=255)
tGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa > 1:2091597/1‑66 (MQ=255)
tGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGAt < 1:31816/69‑1 (MQ=255)
gTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCt < 1:1051596/71‑1 (MQ=255)
gTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCt < 1:522446/71‑1 (MQ=255)
|
CCAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCT > minE/1257307‑1257441
|
| 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
