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 F1 I1 R1
|
15 |
35.6 |
2322208 |
94.1% |
2185197 |
75.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,162,570 |
T→A |
I572N (ATC→AAC) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,162,570 | 0 | T | A | 95.7%
| 159.3
/ 0.7
| 46 | I572N (ATC→AAC) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base T (2/0); new base A (22/22); total (24/22) |
| Fisher's exact test for biased strand distribution p-value = 4.90e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.84e-01 |
GAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGAC > REL606/4162498‑4162639
|
gagaCGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGATNCCCATGAAGCTCCGAACATCGGTCTGAACaa < 1:107969/76‑1 (MQ=255)
cGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAActct < 2:855588/76‑1 (MQ=255)
tACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAActctct < 1:165836/76‑1 (MQ=255)
tACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAActctct > 2:66925/1‑76 (MQ=255)
acacCCGACTCACTACGNTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCNCACATCTGTATAAACAACTCTCTg > 2:950246/1‑76 (MQ=255)
cccGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTGTGAACAACTCTCTGTcc > 2:166970/1‑76 (MQ=255)
aCTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCgtgt < 1:165144/76‑1 (MQ=255)
cTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTa > 2:245712/1‑76 (MQ=255)
tCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTAc > 2:281412/1‑76 (MQ=255)
tACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGcac < 1:737448/76‑1 (MQ=255)
cGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAg < 1:8972/76‑1 (MQ=255)
tCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACt > 2:267088/1‑76 (MQ=255)
cgcgTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTa > 1:625077/1‑76 (MQ=255)
gcgTATGTCCAATCGAAACCCCTGAAGGTCCNGACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTaa > 1:104148/1‑76 (MQ=255)
gTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCAAAGACTAACg > 2:240286/1‑76 (MQ=255)
tATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGa > 1:278686/1‑76 (MQ=255)
tATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGa < 1:245712/76‑1 (MQ=255)
tGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAAt < 2:551498/76‑1 (MQ=255)
tGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAAt < 1:195147/76‑1 (MQ=255)
gTCCAATCGAAACCCCTGAAGGTCNGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATa > 2:204462/1‑76 (MQ=255)
gTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATa < 1:950246/76‑1 (MQ=255)
tCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATAc < 2:131865/76‑1 (MQ=255)
tCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAAATCTCTGTCCGTGTACGCACAGACTAACGAATAc > 1:945456/1‑76 (MQ=255)
cAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACgg < 2:511562/76‑1 (MQ=255)
cAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACgg > 1:37801/1‑76 (MQ=255)
cAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACgg > 1:582568/1‑76 (MQ=255)
aaTCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGc > 1:207316/1‑76 (MQ=255)
aaTCGAAACCCCTGAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGc < 2:242979/76‑1 (MQ=255)
tggaGGTCCGAACATCGGTCTGAACANCTCTCTATCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGATACt > 2:993001/4‑76 (MQ=255)
gAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTc < 1:35097/76‑1 (MQ=255)
gAAGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTCGAGACTc < 1:720000/76‑1 (MQ=255)
gAAGGTCCGAACAGCGGTCTGAACAACTCTCTGTCCGTGTACTCACAGACTAACGAATACGGCTTCCTTGAGACTc > 1:743180/1‑76 (MQ=255)
aaGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTcc > 1:937327/1‑76 (MQ=255)
aGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCg < 2:1088977/76‑1 (MQ=255)
aGGTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCg > 1:214030/1‑76 (MQ=255)
ggTCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGt < 2:328691/76‑1 (MQ=255)
tCCGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTAt < 2:830720/76‑1 (MQ=255)
ccGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATc > 1:366774/1‑76 (MQ=255)
cGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCg < 2:1095278/76‑1 (MQ=255)
cGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCg < 1:215108/76‑1 (MQ=255)
cGAACATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGCCTTCCTTGAGACTCCGTATCg > 2:369594/1‑76 (MQ=255)
aaCATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTa > 2:357103/1‑76 (MQ=255)
aaCATCGGTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTa < 1:27069/76‑1 (MQ=255)
aCATCGGCCTGAACAACTCTCTGTCCGCGTACGCACATACTCAAGCATACGGCTTCCTTGTTACTCCGTATCGTaa > 1:1037054/1‑76 (MQ=255)
cGGTCTGAACAACTCTCTGTCCGTGTACGCACACACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTg < 1:920608/76‑1 (MQ=255)
ttCTGAACAACGCTCTGATCGGTTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGAc < 1:118704/75‑1 (MQ=255)
gTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTTAGACTCCGTATCGTAAAGGGAc > 2:783758/1‑76 (MQ=255)
gTCTGAACAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGAc > 1:686194/1‑76 (MQ=255)
|
GAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGAC > REL606/4162498‑4162639
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
