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 |
|
A57 F1 I1 R1
|
16 |
65.9 |
4148770 |
97.1% |
4028455 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,145,769 |
C→T |
intergenic (+100/‑95) |
dnaG → / → rpoD |
DNA primase/RNA polymerase sigma factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,145,769 | 0 | C | T | 96.0%
| 267.2
/ 1.5
| 74 | intergenic (+100/‑95) | dnaG/rpoD | DNA primase/RNA polymerase sigma factor |
| Reads supporting (aligned to +/- strand): ref base C (2/1); new base T (37/34); total (39/35) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.48e-01 |
TCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCAT > REL606/3145697‑3145840
|
tCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTggtggt < 2:401913/76‑1 (MQ=255)
tCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTggtggt < 2:780751/76‑1 (MQ=255)
cGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTa < 1:851896/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaa < 2:1428270/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaa < 2:187781/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaa < 1:223667/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTaa > 1:1173067/1‑76 (MQ=255)
tgAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaaa > 2:925684/2‑76 (MQ=255)
ggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaaa < 1:1413988/76‑1 (MQ=255)
gAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaac < 2:1373087/76‑1 (MQ=255)
aGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaacaa < 2:1915939/76‑1 (MQ=255)
gCCCCCGACAGCCGCACTGAGAGACAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaacaac > 2:344676/1‑76 (MQ=255)
cccccGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAAcc > 2:1675016/1‑76 (MQ=255)
cccccGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAAcc < 1:1580877/76‑1 (MQ=255)
cGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACACCCTCGTAATTATCGTTGGTGGTAAACAACCGTTg > 1:2053835/1‑76 (MQ=255)
aGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAtt < 2:858003/76‑1 (MQ=255)
ccGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTc < 2:1929335/76‑1 (MQ=255)
ccGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTc < 1:2071920/76‑1 (MQ=255)
ccGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTc < 2:582485/76‑1 (MQ=255)
ccGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTc < 2:571805/76‑1 (MQ=255)
gCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAg < 1:1651491/76‑1 (MQ=255)
gCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAg < 1:1651482/76‑1 (MQ=255)
cACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGc < 1:185672/76‑1 (MQ=255)
tGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGtt > 1:335762/1‑76 (MQ=255)
gagaGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTa > 2:1947221/1‑76 (MQ=255)
gagaGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTa > 2:1730243/1‑76 (MQ=255)
agagGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTaa > 2:1727245/1‑76 (MQ=255)
gagGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAAc < 1:1012140/76‑1 (MQ=255)
agGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACg > 2:447431/1‑76 (MQ=255)
cGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGaa < 1:554839/76‑1 (MQ=255)
ggCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAg > 2:556531/1‑76 (MQ=255)
ggCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAg < 1:884715/76‑1 (MQ=255)
ggCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAg > 1:717046/1‑76 (MQ=255)
cAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGa > 2:1003604/1‑76 (MQ=255)
cAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGa > 2:192196/1‑76 (MQ=255)
aaaTATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGAc > 2:1923284/1‑76 (MQ=255)
atatatAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACAt > 1:1027746/1‑76 (MQ=255)
tatataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATc < 2:102296/76‑1 (MQ=255)
atataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTACCGGCTGAAGGACATCg > 1:1646548/1‑76 (MQ=255)
atataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCg > 2:827730/1‑76 (MQ=255)
tataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCgg < 1:551447/76‑1 (MQ=255)
tataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCgg < 1:169560/76‑1 (MQ=255)
ataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCggg > 1:757418/1‑76 (MQ=255)
ataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCggg < 2:1447220/76‑1 (MQ=255)
ataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCggg > 2:831830/1‑76 (MQ=255)
taAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGt > 1:502150/1‑76 (MQ=255)
aGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCa < 1:766829/76‑1 (MQ=255)
aGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCa < 2:1242282/76‑1 (MQ=255)
aGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCa < 2:227689/76‑1 (MQ=255)
aGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCa > 2:333142/1‑76 (MQ=255)
aCGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATc > 1:571020/1‑76 (MQ=255)
cGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCg < 1:925684/76‑1 (MQ=255)
cGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCg < 1:834660/76‑1 (MQ=255)
gCCCCCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGc > 1:73092/1‑76 (MQ=255)
cccTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGcc > 2:180581/1‑76 (MQ=255)
cTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCa > 1:2049592/1‑76 (MQ=255)
tCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCaa > 2:1074155/1‑76 (MQ=255)
gTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAaca > 2:164172/1‑76 (MQ=255)
gTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAaca > 1:1729906/1‑76 (MQ=255)
gTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAaca < 2:1244965/76‑1 (MQ=255)
gTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAaca > 1:1428385/1‑76 (MQ=255)
tAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAacac > 1:1554567/1‑76 (MQ=255)
tAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAacac > 2:1088198/1‑76 (MQ=255)
tAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAacac > 1:1414013/1‑76 (MQ=255)
aTTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCa > 1:1020687/1‑76 (MQ=255)
aTTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCa < 2:1985427/76‑1 (MQ=255)
aTTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCa < 2:1605602/76‑1 (MQ=255)
aTTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCa < 2:1515887/76‑1 (MQ=255)
ttATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCaa > 2:999068/1‑76 (MQ=255)
ttATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCac > 2:48865/1‑75 (MQ=255)
tATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAAACGCCCAACACCAAc < 2:2053835/76‑1 (MQ=255)
aTCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAAcc < 2:1033088/76‑1 (MQ=255)
tCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCt > 2:568858/1‑76 (MQ=255)
cGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTc > 2:80732/1‑76 (MQ=255)
cGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTc > 1:1782092/1‑76 (MQ=255)
cGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTc > 2:942351/1‑76 (MQ=255)
ttGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCAt < 1:630006/76‑1 (MQ=255)
|
TCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCAT > REL606/3145697‑3145840
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
