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 |
|
A2 F1 I2 R1
|
764 |
42.0 |
2018750 |
95.5% |
1927906 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,240,984 |
(G)7→9 |
coding (1041/1245 nt) |
sstT → |
sodium:serine/threonine symporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,240,977 | 1 | . | G | 100.0%
| 110.8
/ NA
| 31 | A345G (GCG→GGG) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (13/18); total (13/18) |
| * | NC_000913 | 3,240,977 | 2 | . | G | 96.8%
| 106.5
/ ‑3.1
| 31 | coding (1034/1245 nt) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (13/17); total (13/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.00e-01 |
GCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑GGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCGCTGAA > NC_000913/3240844‑3241106
||
gcgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggggg < 1:153430/139‑1 (MQ=255)
ggcgCAGCAATCACTATGACCGTGTTGATGCTGGCTGCGGTTAATACGCTGGGTATACCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGTTTCTCTGGGTGCCTGTGGCGCATCCGGCGTGGC‑‑gggggtgg < 2:125124/139‑4 (MQ=255)
cgcAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑gggggggggt < 2:524671/139‑4 (MQ=255)
tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTg < 2:939248/139‑1 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc < 1:25529/139‑1 (MQ=255)
tGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGcc < 2:884010/139‑1 (MQ=255)
cGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTctgctgct < 1:51612/114‑1 (MQ=255)
cGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTctgctgct > 2:51612/1‑114 (MQ=255)
aTACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTctgctgct < 1:391270/108‑1 (MQ=255)
aTACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTctgctgct > 2:391270/1‑108 (MQ=255)
gCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGaa < 1:927642/139‑1 (MQ=255)
gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCa > 2:747028/1‑108 (MQ=255)
gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCa < 1:747028/108‑1 (MQ=255)
gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc < 1:358530/113‑1 (MQ=255)
gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc > 2:358530/1‑113 (MQ=255)
tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑gggggggggtctc > 1:175315/1‑77 (MQ=255)
tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑gggggggggtctc < 2:175315/83‑7 (MQ=255)
gATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCa > 2:691704/1‑139 (MQ=255)
cGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc < 2:535995/90‑1 (MQ=255)
cGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGc > 1:535995/1‑90 (MQ=255)
cgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg > 2:592180/1‑58 (MQ=255)
cgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg < 1:592180/58‑1 (MQ=255)
ttctgTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCg < 1:709723/96‑1 (MQ=255)
tgctgTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCg > 2:709723/1‑98 (MQ=255)
cGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGc < 2:391897/107‑1 (MQ=255)
cGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGc > 1:391897/1‑107 (MQ=255)
tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGa > 2:299173/1‑95 (MQ=255)
tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGa < 1:299173/95‑1 (MQ=255)
tgtgtgCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGAc < 2:773868/139‑1 (MQ=255)
gtgCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTatcat > 2:344295/1‑120 (MQ=255)
gtgCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTatcat < 1:344295/120‑1 (MQ=255)
gCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGaa > 2:277266/1‑79 (MQ=255)
gCCTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGaa < 1:277266/79‑1 (MQ=255)
ccTGTGGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTTTTGc > 1:609147/1‑139 (MQ=255)
tgGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGa > 1:954809/1‑40 (MQ=255)
tgGCGCATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGa < 2:954809/40‑1 (MQ=255)
cATCCGGCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACcgcg < 2:337080/139‑1 (MQ=255)
ggCGTGGCGGGGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGTGTATTGCAGGACTCTTGCGAAACCGCGCTGaa < 1:691704/139‑1 (MQ=255)
||
GCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑GGGGGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCGCTGAA > NC_000913/3240844‑3241106
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
