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 |
|
A79 F1 I1 R1
|
19 |
52.0 |
3333102 |
95.7% |
3189778 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,166,077 |
G→A |
A373T (GCA→ACA) |
rpoC → |
DNA‑directed RNA polymerase subunit beta' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,166,077 | 0 | G | A | 94.9%
| 213.3
/ 0.5
| 59 | A373T (GCA→ACA) | rpoC | DNA‑directed RNA polymerase subunit beta' |
| Reads supporting (aligned to +/- strand): ref base G (2/1); new base A (31/25); total (33/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTACCACCATTAAA > REL606/4166004‑4166145
|
ctactCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACa > 1:1361366/1‑76 (MQ=255)
ccGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGa > 2:1013257/1‑76 (MQ=255)
ccGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGa > 1:1313565/1‑76 (MQ=255)
ccGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGa > 2:914935/1‑76 (MQ=255)
ccGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGa > 2:913947/1‑76 (MQ=255)
cGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAg < 1:1323678/76‑1 (MQ=255)
ggTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGc < 1:773060/76‑1 (MQ=255)
cGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGt > 2:1252968/1‑76 (MQ=255)
cGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGt > 1:855457/1‑76 (MQ=255)
ttCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTc < 1:156541/76‑1 (MQ=255)
ttCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTc > 1:552247/1‑76 (MQ=255)
gTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAAc > 2:925165/1‑76 (MQ=255)
gTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAAc < 1:975134/76‑1 (MQ=255)
aTCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGt > 1:942880/1‑76 (MQ=255)
gTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCt > 1:281446/1‑76 (MQ=255)
tAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTa < 1:596345/76‑1 (MQ=255)
tAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTa < 2:1145656/76‑1 (MQ=255)
tAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTa < 2:1156239/76‑1 (MQ=255)
tAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTa < 1:301930/76‑1 (MQ=255)
tAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTa > 1:313839/1‑76 (MQ=255)
gTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACgg < 2:383594/76‑1 (MQ=255)
ggaTACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCa > 2:1374399/3‑76 (MQ=255)
ccATTCCCGCGTCTGCAGCATAGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCa < 2:1196988/76‑1 (MQ=255)
ccATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCa > 2:1399437/1‑76 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCaa < 2:165509/76‑1 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCaa > 1:678446/1‑76 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCaa < 2:42095/76‑1 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCaa < 1:994069/76‑1 (MQ=255)
cATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCaa < 2:118432/76‑1 (MQ=255)
aTACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAg > 2:753365/1‑76 (MQ=255)
ccTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTg > 1:557856/1‑76 (MQ=255)
ccTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTg > 1:1550737/1‑76 (MQ=255)
gCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGaa < 1:151567/76‑1 (MQ=255)
gTCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACt > 2:554945/1‑76 (MQ=255)
gTCTGCACCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACt > 1:1105629/1‑76 (MQ=255)
tCTGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTg < 1:1662875/76‑1 (MQ=255)
tGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCg > 1:888917/1‑76 (MQ=255)
tGCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCg > 1:459133/1‑76 (MQ=255)
gCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGt > 2:973327/1‑76 (MQ=255)
gCATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGt > 2:2070/1‑76 (MQ=255)
cATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTg > 2:987771/1‑76 (MQ=255)
cATCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTg > 2:424281/1‑76 (MQ=255)
aTCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTgg < 2:124545/76‑1 (MQ=255)
aTCAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTgg < 2:466956/76‑1 (MQ=255)
cAGTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTc > 1:1020459/1‑76 (MQ=255)
gTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCtt < 1:586315/76‑1 (MQ=255)
gTGCGGTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCtt > 1:865924/1‑76 (MQ=255)
ggTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTa < 2:181805/76‑1 (MQ=255)
ggTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTa < 2:448095/76‑1 (MQ=255)
ggTCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTa > 2:722912/1‑76 (MQ=255)
tCTGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTacc > 1:601117/1‑76 (MQ=255)
tGCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTaccac > 1:691825/1‑76 (MQ=255)
gCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTaccacc > 2:168052/1‑76 (MQ=255)
gCCGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTaccacc > 2:913443/1‑76 (MQ=255)
ccGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTAccacca < 2:1204406/76‑1 (MQ=255)
ccGAAGAAAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACGGCGTGGTCTTGCTAccacca < 1:143959/76‑1 (MQ=255)
gaagaaAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTACCACCAtt < 1:956288/76‑1 (MQ=255)
agaaAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTACCACCATTaa < 2:976612/76‑1 (MQ=255)
gaaAATGACACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTACCACCATTaaa < 1:29976/76‑1 (MQ=255)
|
CTACTCCGGTCGTTCTGTAATCACCGTAGGTCCATACCTGCGTCTGCATCAGTGCGGTCTGCCGAAGAAAATGGCACTGGAGCTGTTCAAACCGTTCATCTACGGCAAGCTGGAACTGCGTGGTCTTGCTACCACCATTAAA > REL606/4166004‑4166145
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
