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 |
|
A85 F1 I1 R1
|
15 |
51.9 |
3515760 |
95.5% |
3357550 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,164,097 |
C→T |
P1081L (CCG→CTG) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,164,097 | 0 | C | T | 95.9%
| 174.7
/ ‑0.4
| 49 | P1081L (CCG→CTG) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base C (2/0); new base T (18/29); total (20/29) |
| Fisher's exact test for biased strand distribution p-value = 1.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.31e-01 |
CGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGT > REL606/4164027‑4164168
|
cGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCg < 2:1443329/76‑1 (MQ=255)
gCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGa > 1:340037/1‑76 (MQ=255)
gCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGa > 1:1501965/1‑76 (MQ=255)
gCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGa > 1:1400278/1‑76 (MQ=255)
ccGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGaa > 1:894070/1‑76 (MQ=255)
ccGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGCGTAATTTCTAAGATCAACCTGATCGaa > 1:448402/1‑76 (MQ=255)
gTATCCAGCCTGGCGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGa > 1:582774/1‑76 (MQ=255)
tATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGat < 1:1002568/76‑1 (MQ=255)
tATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGat < 1:1750118/76‑1 (MQ=255)
tCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGatat < 1:1516595/76‑1 (MQ=255)
tCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGCAATTTCTAAGATCAACCTGATCGAAGatat < 1:619264/76‑1 (MQ=255)
ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATg < 2:205450/76‑1 (MQ=255)
cAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGc > 2:199263/1‑76 (MQ=255)
ccTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCtt < 1:1701718/76‑1 (MQ=255)
cTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTa < 2:202164/76‑1 (MQ=255)
tGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTAc < 2:1745554/76‑1 (MQ=255)
ggTGACAAGATGGCAGGTCGTCGCGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACg < 2:1046364/76‑1 (MQ=255)
gTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGa < 1:146905/76‑1 (MQ=255)
gACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATg < 1:1419700/76‑1 (MQ=255)
aCAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGa < 2:1624178/76‑1 (MQ=255)
cAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGaa < 1:1155825/76‑1 (MQ=255)
aGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGGAGATATGCCTTATGATGaaac > 2:1236493/1‑75 (MQ=255)
gATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAAc < 1:1691738/76‑1 (MQ=255)
ggCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGt < 1:52176/76‑1 (MQ=255)
gtcgtcACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGcc > 1:1009928/1‑76 (MQ=255)
cACGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAg > 1:1136619/1‑76 (MQ=255)
cGGTAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGAc < 2:975211/76‑1 (MQ=255)
tAACAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATc < 2:1084645/76‑1 (MQ=255)
aaCAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCg > 2:379941/1‑76 (MQ=255)
aCAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGt > 2:1277796/1‑76 (MQ=255)
cAAGGGTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTa < 2:76218/76‑1 (MQ=255)
ggTGTAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGa < 1:871095/76‑1 (MQ=255)
ggTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGa > 1:1076185/1‑76 (MQ=255)
gtgtAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGaa < 2:366059/76‑1 (MQ=255)
gtgtAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGaa > 2:19321/1‑76 (MQ=255)
tgtAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAAc < 1:983029/76‑1 (MQ=255)
tgtAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAAc < 1:620533/76‑1 (MQ=255)
tAATTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTAAGCCGGTAGACATCGTACTGAAccc < 2:877655/76‑1 (MQ=255)
aTTTCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGc > 2:316864/1‑76 (MQ=255)
tCTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTgg < 1:1487057/76‑1 (MQ=255)
cTAAGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTggg > 2:1006440/1‑76 (MQ=255)
tAAGATCAACCCAATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGc > 1:1250259/1‑76 (MQ=255)
aGATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGt < 1:107037/76‑1 (MQ=255)
gATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTa > 1:1415949/1‑76 (MQ=255)
gATCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTa > 1:751742/1‑76 (MQ=255)
aTCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAANCCGCTGGGCGTAc < 1:1194560/76‑1 (MQ=255)
tCAACCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTAcc > 2:1067997/1‑76 (MQ=255)
aaCCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGt < 2:1684122/76‑1 (MQ=255)
aaCCTGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGt < 2:561670/76‑1 (MQ=255)
|
CGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGT > REL606/4164027‑4164168
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
