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 |
1,439,412 |
G→A |
27.9% |
A297V (GCT→GTT) |
ompC ← |
outer membrane porin protein C |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,439,412 | 0 | G | A | 27.9%
| 70.6
/ 27.6
| 43 | A297V (GCT→GTT) | ompC | outer membrane porin protein C |
| Reads supporting (aligned to +/- strand): ref base G (15/16); new base A (3/9); total (18/25) |
| Fisher's exact test for biased strand distribution p-value = 1.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGT > minE/1439345‑1439478
|
aacatATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGcc < 1:1318332/70‑1 (MQ=255)
aacatATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAACCa < 1:1430600/71‑1 (MQ=255)
aacatATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAACCa < 1:1659042/71‑1 (MQ=255)
aacatATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAACCa < 1:1694657/71‑1 (MQ=255)
acatATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAACCAg > 1:29910/1‑71 (MQ=255)
atatTTCAGGATATATTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAACCAggg < 1:2063387/71‑1 (MQ=255)
tCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGggacgga > 1:1447348/1‑71 (MQ=255)
cgtcgtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAACCAGGGACGGACGCAGACCGAAg > 1:1759113/1‑71 (MQ=255)
gtcgtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAACCAGGGACGGACGCAGACCGAAGt > 1:416079/1‑71 (MQ=255)
gtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCg < 1:1473176/70‑1 (MQ=255)
gtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCg < 1:290114/70‑1 (MQ=255)
gtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCg < 1:2081751/70‑1 (MQ=255)
gtcgtAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGa < 1:1039848/71‑1 (MQ=255)
gCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTgg < 1:1160673/70‑1 (MQ=255)
aCGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGAc > 1:457722/1‑53 (MQ=255)
aCCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAg > 1:983349/1‑71 (MQ=255)
cccAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGc < 1:455943/71‑1 (MQ=255)
cccAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGc < 1:1704761/71‑1 (MQ=255)
cAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTa > 1:72339/1‑63 (MQ=255)
ggTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCg < 1:1914272/53‑1 (MQ=255)
ggTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCg < 1:1598397/53‑1 (MQ=255)
tttttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGaa > 1:691008/1‑53 (MQ=255)
tttttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGaa > 1:1132065/1‑53 (MQ=255)
tttttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGc > 1:342870/1‑71 (MQ=255)
tttttACCTTTAGACTGCAGGTAAACCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGa < 1:1709497/63‑1 (MQ=255)
tttttACCTTTAGACTGCAGGTAAACCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGa < 1:1611214/63‑1 (MQ=255)
ttttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGc > 1:1877404/1‑70 (MQ=255)
ttttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCt > 1:1636459/1‑71 (MQ=255)
ttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTc > 1:2151383/1‑71 (MQ=255)
tACCTTTAGACTGCAGGTAAACCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTc < 1:71542/70‑1 (MQ=255)
ttAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCaa > 1:2086196/1‑58 (MQ=255)
ttAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCaa > 1:576751/1‑58 (MQ=255)
ttAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt > 1:1792467/1‑71 (MQ=255)
ttAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGt > 1:144994/1‑70 (MQ=255)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt < 1:1026778/70‑1 (MQ=255)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt < 1:80751/70‑1 (MQ=255)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt < 1:672614/70‑1 (MQ=255)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt < 1:2007761/70‑1 (MQ=255)
gACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg > 1:1833796/1‑71 (MQ=255)
gTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTc < 1:807489/61‑1 (MQ=255)
gTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGt < 1:363455/71‑1 (MQ=255)
gTAAACCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCg < 1:173441/55‑1 (MQ=255)
gTAAACCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCg < 1:1891542/55‑1 (MQ=255)
|
AACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGT > minE/1439345‑1439478
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
