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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
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 | 78.1%
| 75.6
/ 18.5
| 32 | noncoding (80/87 nt) | leuQ | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base . (3/4); new base G (15/10); total (18/14) |
| Fisher's exact test for biased strand distribution p-value = 6.69e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGGCG > NC_000913/4606207‑4606441
|
aGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCAc > 1:317445/1‑139 (MQ=255)
gggCCTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCGAGCGCGTCTACCAGTTCCGCCACCTTCGCCCAGTGCGTGAAATATCAACCTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGt < 1:450632/139‑1 (MQ=21)
gggACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTACGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GTCTTGAACCTCAACTTCCgg > 2:190038/1‑138 (MQ=18)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCa > 2:227568/1‑125 (MQ=255)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCa < 1:227568/125‑1 (MQ=255)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGt < 2:298656/132‑1 (MQ=255)
gAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGt > 1:298656/1‑132 (MQ=255)
cccccACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGAGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTa > 2:986674/1‑139 (MQ=255)
tCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTGTTTGGTGCGAG‑GGGGGGG‑GCCTTGAACCCCCCCGTCCGGAAGGACACTaataacaga > 1:487818/1‑132 (MQ=25)
acTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTc > 2:932535/1‑139 (MQ=255)
acacCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTAcc < 1:932535/139‑1 (MQ=255)
cTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAAt > 1:418371/1‑139 (MQ=255)
tGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCa > 2:867439/1‑93 (MQ=255)
tGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCa < 1:867439/93‑1 (MQ=255)
gAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTa > 1:200127/1‑101 (MQ=255)
gAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTa < 2:200127/101‑1 (MQ=255)
aGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCg < 1:986674/139‑1 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGcgcg < 2:169882/122‑1 (MQ=255)
aGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGcgcg > 1:169882/1‑122 (MQ=255)
cgcgTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCt > 2:374958/1‑139 (MQ=255)
gTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGGAGACTTAAACCCCCACATCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCg < 2:418371/139‑1 (MQ=255)
tCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGc > 2:78925/1‑139 (MQ=255)
tGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATa < 2:203510/115‑1 (MQ=255)
tGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATa > 1:203510/1‑115 (MQ=255)
tGCGAGCAATATCAACGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGc > 1:939162/1‑139 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGt > 1:477323/1‑56 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGt < 2:477323/56‑1 (MQ=255)
tatCAACGTGGTTTTTGGTGCGAGGGGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACgg > 2:260387/1‑139 (MQ=255)
agcGTGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGgcg < 1:369691/137‑1 (MQ=255)
aCGTGGTTTTTGGTGCGAGGGGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGgcg < 1:260387/139‑1 (MQ=255)
tGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCATAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGgcg > 2:1025062/1‑135 (MQ=255)
tGGTTTTTGGTGCGAG‑GGGGGGG‑GACTTGAACCCCCACGTCCATAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGgcg < 1:1025062/135‑1 (MQ=255)
|
AGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑‑GGGGGGG‑GACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCATACCATCAATTCTTAAAAAGAATTGCTACCACGGAGGCG > NC_000913/4606207‑4606441
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ 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
