(The following FAQs are written for the previous version of UTGB Medaka browser, and now obsolete)

A: Please send an out-of-service report to webmaster AT utgenome.org

A: EST information is not utilized to assemble shotgun sequences. It is possible to separate one EST into two scaffolds.

A: When you point a mouse on the blue bars at the top and the button of the tracks, red line appears. Anchor one position by double click and double click again on another position, then you can zoom up to the pinched region.

A: The small scaffolds, which are less than 2 kb, are not on the UTGB medaka. You may try to blast against shotgun read at NIG genome sequence center (http://dolphin.lab.nig.ac.jp/medaka/�j.

A: It is impossible. Please use other sites listed below. NIG sequencing center http://dolphin.lab.nig.ac.jp/medaka/ ensembl http://www.ensembl.org/Oryzias_latipes/index.html

A: Sorry, under construction (see Table 1).

A: Check whether you are using the same assembly version that you were using yesterday. The scaffold numbers change between release versions.

A: There is no translating coordinates between versions.

A: The scaffolds are numbered from the longest one.

A: Click the scaffold numbers, which are shown in the both ends of chromosome overview track.

A: In chromosome overview, yellow bar means a whole linkage group and blue bar means the scaffold that is displayed.

A: We use genscan program.

A: To save a Genome Browser tracks image to a file, click the PNG link in the top menu on the tracks page. The image of the currently displayed tracks will be displayed in PNG format, which can be printed or saved as a bitmap file.

A: The medaka genome project is a collaboration among Morishita lab. (Dept. Comp. Biol. Univ. Tokyo), Takeda lab. (Dept. Biol. Sci. Univ. Tokyo) and Kohara lab. (Cen. Gen. Res. Info. Natl. Inst. Genet.) and was started in February 2001.

A: Hd-rR. Strain genome is assembled. HNI strain is also used for comparing polymorphism between strains.

A: The ensembl genome sequencing and assembly for MEDAKA1 (October 2005) were provided from medaka genome project and its assembly version is the same as version 1.0 in UTGB. Both website also display their own analysis.