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 |
|
A0 F0 I1 R1
|
715 |
38.4 |
1606192 |
96.6% |
1551581 |
120.0 |
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 | 96.9%
| 109.7
/ ‑3.6
| 32 | coding (1034/1245 nt) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base G (14/17); total (14/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| * | NC_000913 | 3,240,977 | 2 | . | G | 90.6%
| 101.6
/ 3.4
| 32 | coding (1034/1245 nt) | sstT | sodium:serine/threonine symporter |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base G (14/15); total (14/18) |
| Fisher's exact test for biased strand distribution p-value = 2.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.06e-01 |
GGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑C‑‑‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCGCTGAA > NC_000913/3240843‑3241106
||
ggcgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑C‑‑‑gggg > 2:601108/1‑139 (MQ=255)
gcgggcgCAGCAATCACTATTACCGTGTTGACCCTCGCCGCGGTTTATACGCTGGGTATTTCGGTCGATCTGCCCACGGCGCTGCCGTTTGGCGTGGTGGGTTCTCTGTGTGCCTTTGGCGCATCCGGC‑GTGG‑C‑‑‑ggggg > 1:300963/1‑139 (MQ=255)
ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑C‑‑‑gggggg‑gg < 2:410793/139‑2 (MQ=255)
gcgcAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑C‑‑‑gggggg‑ggg > 1:592209/1‑137 (MQ=255)
cACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CG‑‑GGGGGG‑GTCTctgctgct < 2:430266/139‑1 (MQ=255)
tATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGa < 2:384515/139‑1 (MQ=255)
ccGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCa < 1:703825/139‑1 (MQ=255)
ccGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCa < 2:396064/139‑1 (MQ=255)
ccGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCa < 2:319809/139‑1 (MQ=255)
ccGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCa < 1:9305/139‑1 (MQ=255)
tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTctgct < 2:433947/126‑1 (MQ=255)
tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTctgct > 1:433947/1‑126 (MQ=255)
gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CG‑‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc < 1:738286/139‑1 (MQ=255)
gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCAGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTgg < 2:300963/139‑1 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGTGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc > 2:520381/1‑139 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc > 1:601423/1‑139 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc < 1:527011/139‑1 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc < 2:601423/139‑1 (MQ=255)
ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc > 2:654317/1‑139 (MQ=255)
tGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGcc > 2:334648/1‑139 (MQ=255)
gACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGTGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCt > 1:742890/1‑139 (MQ=255)
aaTACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGGGGGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTa > 1:801924/1‑139 (MQ=255)
tGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAAc > 1:106099/1‑139 (MQ=255)
aTTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGatat > 2:681274/1‑139 (MQ=255)
tCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCg > 2:201581/1‑139 (MQ=255)
gcgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCg < 1:611000/110‑1 (MQ=255)
gcgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCg > 2:611000/1‑110 (MQ=255)
gcgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGt < 2:659783/139‑1 (MQ=255)
tgctgTTTAGCGTGGTGGCTTCTCCGGGTGCCTGTGGCCCATCCGGCTTTGGTG‑‑‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGc < 1:591447/139‑1 (MQ=255)
gctgTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCt < 2:580932/139‑1 (MQ=255)
ggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCg < 1:207585/139‑1 (MQ=255)
tggCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc < 2:148255/69‑1 (MQ=255)
tggCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGc > 1:148255/1‑69 (MQ=255)
tgGCGCATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGaaa > 1:690529/1‑139 (MQ=255)
cATCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACtgcg < 2:472476/139‑1 (MQ=255)
tCCGGC‑GTGG‑CGG‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCGCt > 2:476269/1‑139 (MQ=255)
cGGT‑GTGG‑C‑‑‑GGGGGGTCTCTTTGCTGCTCAGCCCACTCGCCTGTAATATTTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTGATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCGCTGaa < 1:449466/139‑1 (MQ=255)
||
GGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGC‑GTGG‑C‑‑‑GGGGGG‑GTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCGCTGAA > NC_000913/3240843‑3241106
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
