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 |
|
A1 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
344,381 |
G→A |
32.0% |
intergenic (+166/‑247) |
yahL → / → yahM |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 344,381 | 0 | G | A | 32.0%
| 65.5
/ 42.1
| 50 | intergenic (+166/‑247) | yahL/yahM | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (15/19); new base A (12/4); total (27/23) |
| Fisher's exact test for biased strand distribution p-value = 6.73e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGA > W3110S.gb/344314‑344445
|
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:317264/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:1745596/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:1664966/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:1623443/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:1778448/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:180121/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:412569/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:682428/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:116913/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:740524/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGttt > 1:1108178/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt > 1:1914765/1‑71 (MQ=255)
ccATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGAttt > 1:1041384/1‑71 (MQ=255)
ttgtGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATg < 1:1654053/71‑1 (MQ=255)
ttgtGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATg < 1:1754224/71‑1 (MQ=255)
aTCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:136254/70‑1 (MQ=255)
aTCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:1382098/70‑1 (MQ=255)
aTCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:652242/70‑1 (MQ=255)
aTCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:1842109/70‑1 (MQ=255)
aTCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:1550241/70‑1 (MQ=255)
cGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATg < 1:54322/64‑1 (MQ=255)
gACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAg < 1:1794840/71‑1 (MQ=255)
gACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAg < 1:154015/71‑1 (MQ=255)
gACACTTCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAg < 1:1435510/71‑1 (MQ=255)
cTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt < 1:1854746/71‑1 (MQ=255)
cTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt < 1:1902589/71‑1 (MQ=255)
cTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt < 1:1501711/71‑1 (MQ=255)
cTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGt < 1:1939281/71‑1 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:97103/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:892864/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:1208123/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:332542/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:570827/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:168979/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:743015/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:1162897/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:293634/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:508368/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:42825/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:1538573/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGttt > 1:1535920/1‑71 (MQ=255)
tCGCTTAAAAAAGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATCCAGATGtt > 1:757878/1‑70 (MQ=255)
aaaaaaGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:1272674/69‑1 (MQ=255)
aaaaaaGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:120130/69‑1 (MQ=255)
aaaaaaGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTtgtg < 1:350767/69‑1 (MQ=255)
aaaGCACCAGTAGTGATTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAAtgt < 1:787063/71‑1 (MQ=255)
gtagtGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGa < 1:784693/71‑1 (MQ=255)
gtagtGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGa < 1:1728463/71‑1 (MQ=255)
tagtGGTTTCTCAGCCATGCGTTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGa < 1:1002474/70‑1 (MQ=255)
tagtGGTTTCGCAGCCATGCGGTGTATAAAAAATGAtct < 1:1493408/39‑1 (MQ=255)
|
CCATCTCTTTTTTCGCCGATATTTTGTTGTGATCGGCGACACTTCGCTTAAAAAAGCACCAGTAGTGGTTTCGCAGCCATGCGGTGTATAAAAAATGATCTCATGCAGATGTTTTGTGAATGTGTTGGTTGA > W3110S.gb/344314‑344445
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
