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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
904,512 |
G→T |
37.2% |
L161L (CTG→CTT) |
ycjP → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 904,512 | 0 | G | T | 37.2%
| 144.6
/ 72.8
| 86 | L161L (CTG→CTT) | ycjP | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (30/24); new base T (28/4); total (58/28) |
| Fisher's exact test for biased strand distribution p-value = 2.16e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01 |
TTACGACACTGAGATGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATGATGGATGGCCTCAACCGTC > minE/904443‑904579
|
ttACGACACTGAGATGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTg > 1:2811349/1‑70 (MQ=255)
acacTGAGATGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGc < 1:2537710/71‑1 (MQ=255)
cacTGAGATGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑t < 1:201704/71‑1 (MQ=255)
cTGAGATGGCGCTGATCATCACCATGGTGGCGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TAc < 1:2607593/71‑1 (MQ=255)
cTGAGATGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGc < 1:1387044/68‑1 (MQ=255)
cTGAGATGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TAc < 1:283462/71‑1 (MQ=255)
agaTGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTc < 1:949747/71‑1 (MQ=255)
agaTGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTc < 1:2637896/71‑1 (MQ=255)
cgcTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACAcc < 1:2340250/71‑1 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCTCCGTGTTTATGCTGAAAAGC‑TACTTCGa < 1:4138999/64‑1 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TAc > 1:3289521/1‑59 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TAc > 1:1323503/1‑59 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TAc > 1:500985/1‑59 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TAc > 1:2544730/1‑59 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGa < 1:490716/64‑1 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGa < 1:2220845/64‑1 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGa < 1:902251/64‑1 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGa < 1:3081884/64‑1 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATc > 1:3990977/1‑71 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATc > 1:1793190/1‑71 (MQ=255)
tGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATc > 1:1308196/1‑71 (MQ=255)
atcatcACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATccc > 1:1524023/1‑71 (MQ=255)
atcatcACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATccc > 1:637676/1‑71 (MQ=255)
catcaCCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATcccc > 1:132348/1‑70 (MQ=255)
tcaCCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATcccc < 1:156936/68‑1 (MQ=255)
tcaCCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATcccc < 1:2994407/68‑1 (MQ=255)
aCCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGAt > 1:2563429/1‑69 (MQ=255)
aCCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGAt > 1:4156211/1‑69 (MQ=255)
cATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGaaaa > 1:1652544/1‑44 (MQ=255)
cATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGaaaa > 1:3333122/1‑44 (MQ=255)
aTGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGAt > 1:2743860/1‑66 (MQ=255)
gTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCg > 1:2101955/1‑70 (MQ=255)
acatgagaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:318038‑M2/23‑41 (MQ=255)
acatgagaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:1703422‑M2/23‑41 (MQ=255)
acatgagaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:3884928‑M2/23‑41 (MQ=255)
acatgagaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:1121767‑M2/23‑41 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:2200125‑M2/22‑37 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:207747‑M2/22‑37 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:1893855‑M2/22‑37 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:3623465‑M2/22‑37 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:4056036‑M2/22‑37 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:119210‑M2/22‑37 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTAAATgcg < 1:2105507‑M2/20‑2 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:476092‑M2/22‑40 (MQ=255)
catgagaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:1186597‑M2/22‑40 (MQ=255)
atgagaagaacggcatagtgCGTGTTTATGCTTaa < 1:1052727‑M2/15‑1 (MQ=255)
atgagaagaacggcatagtgCGTGTTTATGCTTaa < 1:2479519‑M2/15‑1 (MQ=255)
atgagaagaacggcatagtgCGTGTTTATGCTTAAATGCGTacttat < 1:1398037‑M2/27‑3 (MQ=255)
tgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:106993‑M2/20‑35 (MQ=255)
tgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:4115856‑M2/20‑35 (MQ=255)
tgagaagaacggcatagtgCGTGTTTATGCTTaaa > 1:3698822‑M2/20‑35 (MQ=255)
gagaagaacggcatagtgCGTGTTTATGCTtaaat > 1:1665869‑M2/19‑34 (MQ=255)
gagaagaacggcatagtgCGTGTTTATGCTTAAATgcg > 1:449586‑M2/19‑37 (MQ=255)
gagaagaacggcatagtgCGTGTTTATGCTTAAATgcg > 1:1361002‑M2/19‑37 (MQ=255)
gagaagaacggcatagtgCGTGTTTATGCTTAAATgcg > 1:237312‑M2/19‑37 (MQ=255)
gagaagaacggcatagtgCGTGTTTATGCTTAAATgcg > 1:3816963‑M2/19‑37 (MQ=255)
gagaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:1476330‑M2/19‑37 (MQ=255)
cAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAgc > 1:3407769/1‑71 (MQ=255)
agaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:3974867‑M2/18‑36 (MQ=255)
agaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:99047‑M2/18‑36 (MQ=255)
agaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:119418‑M2/18‑36 (MQ=255)
agaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:1636201‑M2/18‑36 (MQ=255)
agaagaacggcatagtgCGTGTTTATGCTTAAATGc > 1:3256942‑M2/18‑36 (MQ=255)
aaaCTCTGCCCACCGCCGTGTTTATGCTGAAAAGG‑TACTTCGa > 1:3130475/1‑43 (MQ=255)
aaaCTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGa > 1:271354/1‑43 (MQ=255)
aaaCTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGa > 1:1710956/1‑43 (MQ=255)
aagaacggcatagtgCGTGTTTATGCTTAAATgcg > 1:1454644‑M2/16‑34 (MQ=255)
aagaacggcatagtgCGTGTTTATGCTTAAATgcg > 1:617631‑M2/16‑34 (MQ=255)
aagaacggcatagtgCGTGTTTATGCTTAAATgcg > 1:806065‑M2/16‑34 (MQ=255)
aCTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAgcggc < 1:3912401/71‑1 (MQ=255)
aCTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAgcgg > 1:3016625/1‑70 (MQ=255)
ctctGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAgcggc > 1:3896271/1‑70 (MQ=255)
ctctGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAgcgg > 1:1009866/1‑69 (MQ=255)
tctGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACCCCATCCCCGATGAGATCGAAGAAGCCGCga > 1:2938343/1‑71 (MQ=255)
tctGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCga > 1:332859/1‑71 (MQ=255)
tctGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCga > 1:1251521/1‑71 (MQ=255)
cccACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCgaagaa < 1:526848/60‑1 (MQ=255)
cccACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCgaagaa < 1:478692/60‑1 (MQ=255)
cccACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCgaagaa < 1:1118032/60‑1 (MQ=255)
tgtTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATga < 1:817656/40‑1 (MQ=255)
tgtTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATga < 1:474167/40‑1 (MQ=255)
tttATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATGATGGATGGCCTCaa > 1:3086150/1‑71 (MQ=255)
tttATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATGATGGATGGCCTCaa > 1:3921925/1‑71 (MQ=255)
tttATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATGATGGATGGCCTCa < 1:2584041/70‑1 (MQ=255)
tATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCga > 1:1155916/1‑53 (MQ=255)
tGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATgatgg < 1:2979859/57‑1 (MQ=255)
tGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATGATGGATGGCCTCAACCGt < 1:4030717/71‑1 (MQ=255)
gCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATGATGGATGGCCTCAACCGTc > 1:3226865/1‑71 (MQ=255)
|
TTACGACACTGAGATGGCGCTGATCATCACCATGGTGACGCAAACTCTGCCCACCGCCGTGTTTATGCTGAAAAGC‑TACTTCGACACCATCCCCGATGAGATCGAAGAAGCGGCGATGATGGATGGCCTCAACCGTC > minE/904443‑904579
|
| 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
