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 |
|
A3 F1 I2 R1
|
777 |
59.2 |
2955938 |
92.5% |
2734242 |
106.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,606,330 |
(G)8→9 |
noncoding (72/87 nt) |
leuQ ← |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,606,322 | 1 | . | G | 98.0%
| 164.4
/ ‑3.8
| 51 | noncoding (80/87 nt) | leuQ | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (26/24); total (26/25) |
| Fisher's exact test for biased strand distribution p-value = 4.90e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGGCG > NC_000913/4606184‑4606441
|
ttGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGa > 2:1154768/1‑139 (MQ=255)
ttGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGa < 1:38396/139‑1 (MQ=255)
gttgtCGCCTCGACTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑gg < 2:1077101/135‑1 (MQ=255)
atatCGGCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑ggg < 1:859867/139‑1 (MQ=255)
tCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCAAGTCCGTAAGGACAATAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTAGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑ggggggg‑ggac < 1:453451/139‑4 (MQ=21)
gTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAAcc > 1:1228574/1‑139 (MQ=255)
ggggggggACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACg < 2:1399088/139‑1 (MQ=255)
ggACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGGCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTa < 1:21789/139‑1 (MQ=255)
ggACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTa < 2:1228574/139‑1 (MQ=255)
ccTTGAACCTCCACGTCCGTAAGGACACTAACACCTGAAGGTAGCCCGTCTACCAATTCCGCAACCTACGCCCAGTGCGAGGAATGTAAACGTGGTTTTTGGTGGGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAg < 1:1217947/138‑1 (MQ=21)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAAcccc > 2:992170/1‑123 (MQ=255)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAAcccc < 1:992170/123‑1 (MQ=255)
tCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGa < 2:54987/139‑1 (MQ=255)
tAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCt > 2:272252/1‑139 (MQ=255)
gacacTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAgcg < 2:649133/138‑1 (MQ=255)
cacTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGGTGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGcgcg < 1:272252/139‑1 (MQ=255)
tAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAgg < 1:342779/112‑1 (MQ=255)
tAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAgg > 2:342779/1‑112 (MQ=255)
tAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCt < 1:1154768/139‑1 (MQ=255)
gAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg < 2:1262796/124‑1 (MQ=255)
gAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg > 1:1262796/1‑124 (MQ=255)
gAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTc > 1:1042738/1‑139 (MQ=255)
aGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCg > 2:822890/1‑139 (MQ=255)
aGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑ggggggg‑g > 1:366747/1‑77 (MQ=255)
aGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑ggggggg‑g < 2:366747/77‑1 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCa < 1:938485/87‑1 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCa > 2:938485/1‑87 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCAc > 2:91060/1‑139 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCAc > 2:414049/1‑139 (MQ=255)
tCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCg > 2:423053/1‑139 (MQ=255)
ccGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACCTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCaa < 1:91060/139‑1 (MQ=255)
gCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGGACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAAtt > 1:927032/1‑139 (MQ=255)
gCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAAccccc < 2:616372/68‑1 (MQ=255)
gCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAAccccc > 1:616372/1‑68 (MQ=255)
ccACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg < 2:1314535/99‑1 (MQ=255)
ccACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg > 1:1314535/1‑99 (MQ=255)
ccACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCAt > 1:1199022/1‑128 (MQ=255)
ccACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCAt < 2:1199022/128‑1 (MQ=255)
tCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCa < 1:1375187/62‑1 (MQ=255)
tCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCa > 2:1375187/1‑62 (MQ=255)
cGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCa > 2:1212678/1‑112 (MQ=255)
cGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCa < 1:1212678/112‑1 (MQ=255)
cccAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGAAACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGa > 1:238435/1‑139 (MQ=255)
tGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGc > 1:87467/1‑139 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAg > 1:1286955/1‑60 (MQ=21)
aGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAg < 2:1286955/60‑1 (MQ=21)
tatCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGa > 2:818999/1‑139 (MQ=255)
atCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGc < 2:1421192/93‑1 (MQ=255)
atCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGc > 1:1421192/1‑93 (MQ=255)
atCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAg > 2:806628/1‑139 (MQ=255)
cAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGgc < 2:1042738/139‑1 (MQ=255)
aaCGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGgcg < 2:238435/139‑1 (MQ=255)
cGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg < 2:1216246/70‑1 (MQ=255)
cGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAg > 1:1216246/1‑70 (MQ=255)
gTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAgg > 1:1273826/1‑46 (MQ=14)
gTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAgg < 2:1273826/46‑1 (MQ=14)
gTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAg < 2:793117/114‑1 (MQ=255)
gTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAg > 1:793117/1‑114 (MQ=255)
|
TTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGGCG > NC_000913/4606184‑4606441
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
