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 |
|
A9 F1 I2 R1
|
760 |
52.7 |
2744488 |
90.2% |
2475528 |
105.0 |
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 | 96.7%
| 100.2
/ ‑3.2
| 30 | coding (1034/1245 nt) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (13/16); total (13/17) |
| 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 |
| * | NC_000913 | 3,240,977 | 2 | . | G | 86.7%
| 88.1
/ 7.3
| 30 | coding (1034/1245 nt) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (1/3); new base G (12/14); total (13/17) |
| Fisher's exact test for biased strand distribution p-value = 6.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
TGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAA > NC_000913/3240842‑3241096
||
tGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑ggg < 2:701802/139‑1 (MQ=255)
gcgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGAACTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑ggggg > 1:797836/1‑139 (MQ=255)
cgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑gggggg > 2:1085795/1‑139 (MQ=255)
ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGACGCATCCGGCGTGGC‑‑‑ggggg < 2:722998/136‑1 (MQ=255)
ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGACGCATCCGGCGTGGC‑‑‑ggggg > 1:722998/1‑136 (MQ=255)
gcgcAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCATCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑gggggg‑‑ggg > 1:818804/1‑137 (MQ=255)
aTTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGG‑‑GTCTCTGCTGCTGa > 1:992516/1‑139 (MQ=255)
tACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑gggggg‑‑gg > 1:870223/1‑121 (MQ=255)
tACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑gggggg‑‑gg < 2:870223/122‑2 (MQ=255)
ccGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCa < 2:973597/139‑1 (MQ=255)
ccGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCa < 2:797836/139‑1 (MQ=255)
cGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGGGGGGG‑‑GTCTCTGCTGCTGATCCCa < 2:992516/139‑1 (MQ=255)
cGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCa < 2:990245/138‑1 (MQ=255)
cGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCa > 1:990245/1‑138 (MQ=255)
gtgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACt < 2:1261875/139‑1 (MQ=255)
gtgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACt < 1:907559/139‑1 (MQ=255)
gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGc < 1:1085795/139‑1 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGc < 1:1352866/139‑1 (MQ=255)
gctgCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAatat > 2:703176/1‑139 (MQ=255)
cTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGaa < 2:1176411/139‑1 (MQ=255)
gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACg > 2:1299796/1‑139 (MQ=255)
aTTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTc < 2:1255571/130‑1 (MQ=255)
aTTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTc > 1:1255571/1‑130 (MQ=255)
tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTg < 1:875047/100‑1 (MQ=255)
tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTg > 2:875047/1‑100 (MQ=255)
tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGc < 2:1222976/102‑1 (MQ=255)
tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGc > 1:1222976/1‑102 (MQ=255)
gATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCa > 1:770955/1‑95 (MQ=255)
gATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCa < 2:770955/95‑1 (MQ=255)
tgctgTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGc < 2:1283466/84‑1 (MQ=255)
tgctgTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGc > 1:1283466/1‑84 (MQ=255)
tgctgTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGc > 2:723538/1‑139 (MQ=255)
gAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCCTGCAGGTGGTTGCCGTCGGCTTTatca > 1:1071278/1‑139 (MQ=255)
gAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTatca > 2:1247356/1‑139 (MQ=255)
tgtgtgCCTGTGGCGCATCCGGCGTGGC‑‑‑GGGGGGGTGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGAc < 2:153922/139‑1 (MQ=255)
gtgtgCCTGTGGCGCATCCGGCGTGGCG‑‑GGGGGG‑‑GTCTCTGCTGCTGATCCCa < 1:387932/53‑1 (MQ=255)
gtgtgCCTGTGGCGCATCCGGCGTGGCG‑‑GGGGGG‑‑GTCCCTGCTGCTTATcccc > 2:387932/1‑52 (MQ=255)
gtgCCTGTGGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGActct > 1:1309227/1‑139 (MQ=255)
tgGCGCATCCGGCGTGGCGG‑GGGGGG‑‑GTCGCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGaaa < 1:723538/139‑1 (MQ=255)
||
TGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑‑GGGGGG‑‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAA > NC_000913/3240842‑3241096
|
| 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
