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 |
|
A4 F1 I2 R1
|
67 |
32.5 |
1435938 |
95.9% |
1377064 |
112.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,087,919 |
C→T |
A114T (GCT→ACT) |
yeeY ← |
LysR family putative transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,087,919 | 0 | C | T | 82.5%
| 83.0
/ 14.4
| 40 | A114T (GCT→ACT) | yeeY | LysR family putative transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (4/3); new base T (18/15); total (22/18) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 |
GATGGTGGCTCATGCATCGCGCCAACAATAATATCCGCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTCCCGCCC > NC_000913/2087795‑2088051
|
gATGGTGGCTCATGCATCGCGCCAACAATAATATCCGCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGgcg > 2:617634/1‑139 (MQ=255)
gATGGTGGCTCATGCATCGCGCCAACAATAATATCCGCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGgcg < 2:325750/139‑1 (MQ=255)
gggtCATGCATCGCGCCAACAATAATATCCGCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCa < 2:475204/136‑1 (MQ=255)
tGCATCGCGCCAACAATAATATCCGCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGaaa > 2:238055/1‑139 (MQ=255)
ccGCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGcc > 1:87712/1‑139 (MQ=255)
gCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCaa > 2:156064/1‑139 (MQ=255)
tCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACgtg > 2:356539/1‑124 (MQ=255)
tCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACgtg < 1:356539/124‑1 (MQ=255)
gggCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGt > 1:289221/1‑83 (MQ=255)
gggCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGt < 2:289221/83‑1 (MQ=255)
gCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTccc < 1:156064/139‑1 (MQ=255)
tCCCATGAACCACCGAGTACGCCATTGATAAACTTGAGGCGCGTCACGCTCTGATGTTGATAAAGAGTCTCAATGAGTGGAGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGc > 2:502460/1‑139 (MQ=255)
cccATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGc > 1:20948/1‑86 (MQ=255)
cccATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGc < 2:20948/86‑1 (MQ=255)
tGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCa < 1:617634/139‑1 (MQ=255)
accGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGt > 2:97323/1‑139 (MQ=255)
ccGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCATGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGtt > 1:131893/1‑139 (MQ=255)
aGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGgcg > 2:323362/1‑67 (MQ=255)
aGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGgcg < 1:323362/67‑1 (MQ=255)
tACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACgtg < 2:623047/88‑1 (MQ=255)
tACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACgtg > 1:623047/1‑88 (MQ=255)
cATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATg < 2:603999/124‑1 (MQ=255)
cATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATg > 1:603999/1‑124 (MQ=255)
aTAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCACGCAGTTTGATCGCCTGCtttt > 2:567978/1‑139 (MQ=255)
ggCGCGTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCg > 2:56739/1‑139 (MQ=255)
cgcgTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCATGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCa < 2:131893/139‑1 (MQ=255)
cgcgTCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCa < 1:201103/139‑1 (MQ=255)
cgTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACg < 1:238055/139‑1 (MQ=255)
tCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGa < 2:70992/56‑1 (MQ=255)
tCACGCTATGATGTTGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGa > 1:70992/1‑56 (MQ=255)
ttGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTcc < 1:567978/139‑1 (MQ=255)
tGATAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTccc < 2:351504/139‑1 (MQ=255)
aTAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTccc > 1:671113/1‑77 (MQ=255)
aTAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTccc < 2:671113/77‑1 (MQ=255)
aTAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTc < 1:659931/108‑1 (MQ=255)
aTAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTc > 2:659931/1‑108 (MQ=255)
aTAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTCCCGc > 2:393777/1‑139 (MQ=255)
aTAAAAAGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTCCCGc > 2:585215/1‑139 (MQ=255)
aTAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTCCCGc > 2:677010/1‑139 (MQ=255)
aaaaaGTTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTCCCGccc > 1:147575/1‑139 (MQ=255)
|
GATGGTGGCTCATGCATCGCGCCAACAATAATATCCGCTCGCCCCTGAGTCAGGGCATCCCATGAACCACCGAGTACGCCATTGATAAACTTCAGGCGCGTCACGCTATGATGTTGATAAAAAGCTTCAATGAGTGGCGCAAGCAGAGAAAAAGGAAACGTGTCGTCCACGCCAATCACCAGCTCGTTTTCCCAGCCTTCATGCAGTTTGATCGCCTGCTTTTCCAGTTCCCGCACGGTATGCAGAACTTCCCGCCC > NC_000913/2087795‑2088051
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
