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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,072,048 |
A→T |
15.9% |
intergenic (‑88/‑131) |
ygjH ← / → ebgR |
conserved hypothetical protein/DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,072,048 | 0 | A | T | 15.9%
| 186.9
/ 25.7
| 75 | intergenic (‑88/‑131) | ygjH/ebgR | conserved hypothetical protein/DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (31/32); new base T (7/5); total (38/37) |
| Fisher's exact test for biased strand distribution p-value = 7.54e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAAAATTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAGGT > minE/2071978‑2072117
|
tAAAATTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGa > 1:2473560/1‑71 (MQ=255)
aaaaTTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt > 1:2909390/1‑71 (MQ=255)
aaaTTTTACTAAAGTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt > 1:3327308/1‑70 (MQ=255)
aaaTTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt > 1:588453/1‑70 (MQ=255)
aaaTTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt > 1:2612748/1‑70 (MQ=255)
aaaTTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt > 1:4073224/1‑70 (MQ=255)
aaaTTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt > 1:134517/1‑70 (MQ=255)
aaaTTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATc < 1:3975109/71‑1 (MQ=255)
tttACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACAt > 1:3016862/1‑71 (MQ=255)
tACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGTTCACAtt < 1:3486635/70‑1 (MQ=255)
cTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGt < 1:501291/71‑1 (MQ=255)
cTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGt < 1:3588682/71‑1 (MQ=255)
aaCTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAg > 1:3332902/1‑71 (MQ=255)
aaCTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAg > 1:1127344/1‑71 (MQ=255)
aaCTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAg > 1:2716116/1‑71 (MQ=255)
aaCTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAg > 1:3794556/1‑71 (MQ=255)
aCTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt > 1:3943840/1‑58 (MQ=255)
cTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGcc > 1:2501550/1‑71 (MQ=255)
taGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCt < 1:2419774/71‑1 (MQ=255)
taGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCt > 1:174119/1‑71 (MQ=255)
aGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGAt < 1:3365210/53‑1 (MQ=255)
gCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGTTCACATTCGTGAGCCGCtgt < 1:4126042/71‑1 (MQ=255)
gCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACAt < 1:1593311/57‑1 (MQ=255)
cAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATc < 1:3692542/52‑1 (MQ=255)
cAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATc < 1:446386/52‑1 (MQ=255)
aaaGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATcac > 1:2689647/1‑52 (MQ=255)
aaaGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATcac > 1:2876583/1‑52 (MQ=255)
aaaGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATcac > 1:1267557/1‑52 (MQ=255)
aaGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCtg < 1:3688487/66‑1 (MQ=255)
aGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGTTCACATTCGTGAGCCGCTGTGTTAc > 1:308740/1‑71 (MQ=255)
aGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGc < 1:1308207/63‑1 (MQ=255)
aGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTAc < 1:1385280/71‑1 (MQ=255)
aGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTAc > 1:952593/1‑71 (MQ=255)
gTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTg > 1:1025259/1‑56 (MQ=255)
gTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTAcc < 1:593190/71‑1 (MQ=255)
cAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGc > 1:937328/1‑71 (MQ=255)
tCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATca < 1:3630228/37‑1 (MQ=255)
tCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCg < 1:3157155/43‑1 (MQ=255)
tCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCg < 1:837431/43‑1 (MQ=255)
atGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCa > 1:3514114/2‑70 (MQ=255)
tAGGCTAAAAATGGAGAATGCAGGCGTGATCACAt < 1:3129576/35‑1 (MQ=255)
tAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGa < 1:2839159/71‑1 (MQ=255)
aGGCTAAAAATGGAGAATGCAGGCGTGTTCACATTCGTGAGCCGCtgt > 1:2844746/1‑48 (MQ=255)
ggCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGaaa > 1:641826/1‑71 (MQ=255)
ggCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGaa < 1:2896277/70‑1 (MQ=255)
tAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGaa > 1:3627955/1‑67 (MQ=255)
aaaaTGGAGAATGCAGGCGTGTTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACgcgc < 1:411437/71‑1 (MQ=255)
aaaTGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGtt < 1:1695928/44‑1 (MQ=255)
aaTGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCtt < 1:402377/71‑1 (MQ=255)
aaTGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCtt < 1:651200/71‑1 (MQ=255)
tGGAGAATGCAGGCGTGTTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCttta > 1:2601346/1‑71 (MQ=255)
tGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCttta > 1:723056/1‑71 (MQ=255)
tGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCttta > 1:674126/1‑71 (MQ=255)
tGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCttta < 1:1308135/71‑1 (MQ=255)
ggAGAATGCAGGCGTGTTCACATTCGTGAGCCGCTGTGTTAc > 1:331566/1‑42 (MQ=255)
gagaATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGaaa > 1:14286/1‑60 (MQ=255)
agaATGCAGGCGTGTTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCtttattt < 1:3136967/71‑1 (MQ=255)
aTGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACt > 1:279844/1‑71 (MQ=255)
aTGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGCTACAGCGTCAAAGAAACGCGCTTTATTTACt > 1:2577925/1‑71 (MQ=255)
tGCAGGCGTGTTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACt > 1:2597699/1‑70 (MQ=255)
tGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGa < 1:3454742/53‑1 (MQ=255)
tGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACt > 1:2042714/1‑70 (MQ=255)
gCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTAc > 1:2384943/1‑68 (MQ=255)
catgCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGaa < 1:1022873/68‑1 (MQ=255)
cAGGCGTGTTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGaa < 1:794984/71‑1 (MQ=255)
cAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGaa < 1:3909210/71‑1 (MQ=255)
cAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGa < 1:3883158/70‑1 (MQ=255)
cAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGa < 1:655804/70‑1 (MQ=255)
aGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGaaa < 1:2327213/71‑1 (MQ=255)
gCGTGTTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGaaa > 1:1375469/1‑50 (MQ=255)
gCGTGTTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGaaa > 1:3713981/1‑50 (MQ=255)
cGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCttta < 1:1607485/58‑1 (MQ=255)
cGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGaaaa > 1:1535650/1‑69 (MQ=255)
tGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAg < 1:729342/44‑1 (MQ=255)
tGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCttta < 1:824979/56‑1 (MQ=255)
tGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAg < 1:3059523/70‑1 (MQ=255)
aTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGaaaa > 1:1474843/1‑65 (MQ=255)
aTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAg > 1:2132493/1‑68 (MQ=255)
aTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAg > 1:2858049/1‑68 (MQ=255)
aTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAGGt > 1:1982877/1‑70 (MQ=255)
aTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAGGt > 1:900696/1‑70 (MQ=255)
aTCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAGGt > 1:390915/1‑70 (MQ=255)
|
TAAAATTTTACTAAACTATAGCAAAAGTTTTTCTCAATCCTGTAGGCTAAAAATGGAGAATGCAGGCGTGATCACATTCGTGAGCCGCTGTGTTACCGTTACAGCGTCAAAGAAACGCGCTTTATTTACTGAAAACAGGT > minE/2071978‑2072117
|
| 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
