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 |
2,681,918 |
A→G |
25.0% |
R598R (CGT→CGC) |
yhgF ← |
predicted transcriptional accessory protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,681,918 | 0 | A | G | 25.0%
| 119.1
/ 45.2
| 68 | R598R (CGT→CGC) | yhgF | predicted transcriptional accessory protein |
| Reads supporting (aligned to +/- strand): ref base A (31/20); new base G (10/7); total (41/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
CTTTGATGATGTCGGTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGAATGCGTT > minE/2681851‑2681982
|
ctTTGATGATGTCGGTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACg > 1:948753/1‑70 (MQ=255)
ctTTGATGATGTCGGTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACg > 1:2076590/1‑70 (MQ=255)
tgatgaTGTCGGTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCa < 1:636126/69‑1 (MQ=255)
tgatgaTGTCGGTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGt > 1:93500/1‑71 (MQ=255)
tgTCGGTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCa > 1:2189147/1‑63 (MQ=255)
ggTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGt > 1:77709/1‑71 (MQ=255)
aCCGTCTGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTAcc > 1:2160855/1‑71 (MQ=255)
aCCGTCGGCACAGCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTAcc > 1:790541/1‑71 (MQ=255)
aCCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTAcc > 1:2070284/1‑71 (MQ=255)
aCCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTAcc > 1:497712/1‑71 (MQ=255)
gCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTACCCAt > 1:682563/1‑67 (MQ=255)
gCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTACCCATCAg < 1:1924205/70‑1 (MQ=255)
gCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTACCCATCAGa < 1:6214/71‑1 (MQ=255)
gCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCAt < 1:719296/67‑1 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAg < 1:1082963/47‑1 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCa > 1:1520501/1‑46 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCa > 1:1666224/1‑46 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCa > 1:1881391/1‑46 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATc > 1:421416/1‑71 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATc > 1:995069/1‑71 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATc > 1:819134/1‑71 (MQ=255)
acacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATc > 1:1510788/1‑71 (MQ=255)
cacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTAcc < 1:361095/61‑1 (MQ=255)
cacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTAcc < 1:734022/61‑1 (MQ=255)
cacCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCt < 1:1064387/71‑1 (MQ=255)
acCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCgct < 1:1046910/51‑1 (MQ=255)
acCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCgct < 1:1804547/51‑1 (MQ=255)
acCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCgct < 1:1090134/51‑1 (MQ=255)
acCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCgct < 1:1366975/51‑1 (MQ=255)
ccGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCGCTGCTGTTACCCATCAGATCttt > 1:1349892/1‑71 (MQ=255)
ccGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCttt < 1:2142827/71‑1 (MQ=255)
ccGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCttt < 1:1402195/71‑1 (MQ=255)
gAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCgctgct > 1:247493/1‑51 (MQ=255)
aaTTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTAc < 1:2202514/37‑1 (MQ=255)
aaTTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTAc < 1:133103/37‑1 (MQ=255)
aaTTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTAc < 1:183541/37‑1 (MQ=255)
tctcATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTc > 1:1616467/1‑65 (MQ=255)
atcaGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCttt > 1:725343/1‑60 (MQ=255)
tcaGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCctgctg > 1:1879055/1‑71 (MQ=255)
caGTAAAGTCAGACGCTTTCAGGTTGCGCAGTTCgc < 1:249669/36‑1 (MQ=255)
aGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGAGCCTGCtgtg > 1:17788/1‑71 (MQ=255)
tAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATc < 1:679593/52‑1 (MQ=255)
aaaGTCAGACGCTTTCAGGTTACGCAGTTCgctga > 1:1977767/1‑34 (MQ=255)
aaaGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGt > 1:670909/1‑58 (MQ=255)
aaGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCtgtg > 1:2036756/1‑67 (MQ=255)
tCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTtgctgc < 1:1389911/71‑1 (MQ=255)
aGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCa > 1:583835/1‑50 (MQ=255)
gACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCtgt < 1:265106/60‑1 (MQ=255)
gACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCtgt < 1:480038/60‑1 (MQ=255)
aCGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAg < 1:2077270/70‑1 (MQ=255)
cGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGaa > 1:2176164/1‑71 (MQ=255)
gCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAg > 1:1776155/1‑47 (MQ=255)
gCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAg > 1:77567/1‑47 (MQ=255)
gCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTtgc > 1:909213/1‑62 (MQ=255)
gCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGaa > 1:198640/1‑70 (MQ=255)
tttCAGGTTACGCAGTTCGCTGCTGTTACCCATCAg > 1:179431/1‑36 (MQ=255)
tttCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGa > 1:1594411/1‑37 (MQ=255)
tttCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGaa > 1:1501396/1‑68 (MQ=255)
tCAGGTTGCGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAg > 1:243219/1‑43 (MQ=255)
cAGGTTGCGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGAATGCGtt > 1:1957752/1‑71 (MQ=255)
cAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGt > 1:1182380/1‑43 (MQ=255)
cAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGAATGCg > 1:1624570/1‑69 (MQ=255)
cAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGAATGCg > 1:2086580/1‑69 (MQ=255)
cAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTAAGt > 1:1576239/1‑43 (MQ=255)
ggTTACGCAGTTCGCTGCTGTTACCCATCAGATCttt < 1:1080742/37‑1 (MQ=255)
ggTTACGCAGTTCGCTGCTGTTACCCATCAGATCttt < 1:182069/37‑1 (MQ=255)
ttACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAg < 1:771837/59‑1 (MQ=255)
ttACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAg < 1:155397/59‑1 (MQ=255)
|
CTTTGATGATGTCGGTTACCGTCGGCACACCGAATTTCTCATCAGTAAAGTCAGACGCTTTCAGGTTACGCAGTTCGCTGCTGTTACCCATCAGATCTTTCAGTGCCTGCTGTGTTGCTGCCAGAATGCGTT > minE/2681851‑2681982
|
| 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
