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 |
|
A5 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,516,285 |
T→C |
6.9% |
intergenic (+20/‑47) |
hslU → / → menA |
molecular chaperone and ATPase component of HslUV protease/1,4‑dihydroxy‑2‑naphthoate octaprenyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,516,285 | 0 | T | C | 6.9%
| 156.6
/ 4.1
| 58 | intergenic (+20/‑47) | hslU/menA | molecular chaperone and ATPase component of HslUV protease/1,4‑dihydroxy‑2‑naphthoate octaprenyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (24/30); new base C (2/2); total (26/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
GATGCGTTGGTGGCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAATTAGCCGA > W3110S.gb/3516221‑3516355
|
gATGCGTTGGTGGCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTtcatca < 1:1437602/67‑1 (MQ=255)
gATGCGTTGGTGGCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTtcacca < 1:2978020/67‑1 (MQ=255)
tGCGTTGGTGGCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGttt < 1:215914/71‑1 (MQ=255)
cGTTGGTGGCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGa > 1:438653/1‑71 (MQ=255)
tggtggCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATg > 1:2890528/1‑70 (MQ=255)
gCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCt < 1:3146136/70‑1 (MQ=255)
gCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCt > 1:3898787/1‑70 (MQ=255)
gCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCACCATTGTTTGATGGGGCt > 1:79438/1‑70 (MQ=255)
cAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGa < 1:2951828/71‑1 (MQ=255)
cAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCACCATTGTTTGATGGGGCTGa < 1:3737196/71‑1 (MQ=255)
aGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGttt < 1:3637369/59‑1 (MQ=255)
aTGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGa < 1:2281288/59‑1 (MQ=255)
aTGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGa < 1:2412586/59‑1 (MQ=255)
aTGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGa < 1:2201308/68‑1 (MQ=255)
aTGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAg < 1:4146224/71‑1 (MQ=255)
tGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTtcat > 1:4095946/1‑48 (MQ=255)
gAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATg > 1:1908225/1‑59 (MQ=255)
gAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCACCATTGTTTg > 1:2367583/1‑56 (MQ=255)
aaGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGcc > 1:4074496/1‑71 (MQ=255)
aGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGccc > 1:416518/1‑71 (MQ=255)
aGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGccc < 1:1675723/71‑1 (MQ=255)
aGATCTGAGCCGTTTTATCCTATAATAGCGTTCAATCATTTTCATCATTGtt > 1:434557/1‑52 (MQ=255)
gATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGt < 1:3501227/50‑1 (MQ=255)
gATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGccc > 1:880921/1‑70 (MQ=255)
cTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTcatcat < 1:2900485/44‑1 (MQ=255)
tGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCt < 1:2308331/57‑1 (MQ=255)
aGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGa > 1:2777919/1‑57 (MQ=255)
aGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCACCATTGTTTGATGGGGCTGAAAGGCCCCAtttt < 1:2007189/70‑1 (MQ=255)
aGCCGTTTTATCCTATAATCGCGTTCAATCAATTTCATCATTGTTTGATGGGGCTGAAAGGCCCCAttt < 1:188169/69‑1 (MQ=255)
ccGTTTTATCCTATAATCGCGTTCAATCATTTtcatc < 1:164558/37‑1 (MQ=255)
ttttATCCTATAATCGCGTTCAATCATTTtcatca < 1:2059367/35‑1 (MQ=255)
ttttATCCTATAATCGCGTTCAATCATTTTCATCATTGttt < 1:1086917/41‑1 (MQ=255)
ttttATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAgg < 1:572518/56‑1 (MQ=255)
ttATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGa > 1:2350633/1‑41 (MQ=255)
ttATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGa > 1:1331317/1‑41 (MQ=255)
ttATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTg > 1:4172576/1‑68 (MQ=255)
ttATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGgcg > 1:4052078/1‑71 (MQ=255)
ttATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGgcg > 1:3514465/1‑71 (MQ=255)
ttATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGgcg > 1:897329/1‑71 (MQ=255)
ttATCCGATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGgcg > 1:554997/1‑71 (MQ=255)
cTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGa < 1:2177963/45‑1 (MQ=255)
tataATCGCGTTCAATCATTTTCATCATTGTTTGa > 1:2806529/1‑35 (MQ=255)
taATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTg < 1:3255290/41‑1 (MQ=255)
taATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTg < 1:3680459/41‑1 (MQ=255)
taATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGtattat > 1:3572236/1‑71 (MQ=255)
tCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGAc > 1:1518040/1‑71 (MQ=255)
gcgTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGAc > 1:2990999/1‑69 (MQ=255)
cgTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGa < 1:3484980/71‑1 (MQ=255)
ttCAATCATTTTCATCATTGTTTGATGGGGCTGaa < 1:3861214/35‑1 (MQ=255)
cAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCAttttt < 1:680663/46‑1 (MQ=255)
cAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGaacaa > 1:1390418/1‑71 (MQ=255)
cAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGaacaa > 1:58832/1‑71 (MQ=255)
aaTCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGaacaa > 1:2036275/1‑70 (MQ=255)
aaTCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGaacaa < 1:2965603/70‑1 (MQ=255)
tCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGtatta > 1:3105436/1‑57 (MQ=255)
tCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGa < 1:4175133/60‑1 (MQ=255)
tCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAAcaacaa < 1:2501052/71‑1 (MQ=255)
aTTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACaaa < 1:2345647/70‑1 (MQ=255)
aTTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACaaa < 1:1806381/70‑1 (MQ=255)
aTTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAAt < 1:2253187/71‑1 (MQ=255)
aTTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAAt < 1:2747931/71‑1 (MQ=255)
aTTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAAt < 1:664353/71‑1 (MQ=255)
ttttCATCATTGTTTGATGGGGCGGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAAtt < 1:1538468/71‑1 (MQ=255)
ttCATCATTGTTTGATGGGGCTGAAAGGCCCCAtttt < 1:3810744/37‑1 (MQ=255)
atcatTGTTTGATGGGGCTGAAAGGCCTCATTTTTATTGGCGCGTATTATGACTGAACAACAAATTAGcc > 1:2018330/1‑70 (MQ=255)
atcatTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAATTAGCCg < 1:1890408/71‑1 (MQ=255)
tcatTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAATTAGCCGa < 1:381101/71‑1 (MQ=255)
|
GATGCGTTGGTGGCAGATGAAGATCTGAGCCGTTTTATCCTATAATCGCGTTCAATCATTTTCATCATTGTTTGATGGGGCTGAAAGGCCCCATTTTTATTGGCGCGTATTATGACTGAACAACAAATTAGCCGA > W3110S.gb/3516221‑3516355
|
| 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
