Changes between Version 19 and Version 20 of UTGBMedaka/Track
- Timestamp:
- 08/15/07 17:16:50 (18 years ago)
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UTGBMedaka/Track
v19 v20 47 47 == Predicted Gene Track == 48 48 49 [[Image(pred.png)]] 50 49 51 This track displays the medaka predicted genes as Mapped gene track. It is viewed on lines, where the exons parts are on rectangular shape. Arrow sign shows the plus or minus strand of the genome. 50 52 51 == 5’SAGE track == 53 == 5’SAGE Track == 54 55 [[Image(5sage.png)]] 56 52 57 This track displays the medaka expression profile by showing mapped 5’end tag of an expressed Gene. Details of each tag can be found by clicking on each viewed rectangle on this track. 53 58 54 == Sequence quality track == 59 == Sequence Quality Track == 60 61 [[Image(qv.png)]] 62 55 63 This track presents the quality value of medaka assembled sequences. The quality value of a subsequence in a scaffold can be viewed by inserting sequence’s scaffold name and location on main window. 56 64 57 == Coverage track == 65 == Coverage Track == 66 67 [[Image(coverage.png)]] 68 58 69 This track displays coverage ratio of a specific sequence from a scaffold, determined by aligning Plasmid read sequence on genome. 59 70 60 71 == Fosmid End Track == 61 This track displays all the mapped fosmid reads obtained at the National Institute of Genetics(NIG,Japan) by using rectangular box in a line. 72 73 [[Image(fosmid.png)]] 74 75 This track displays all the mapped fosmid reads obtained at the National Institute of Genetics(NIG,Japan) by using rectangular box in a line. 62 76 63 77 == Bac End Track == 64 78 79 [[Image(bac.png)]] 80 65 81 == RFLP marker Track == 66 This track presents known Restriction Fragment Length Polymorphism (RFLP) marker downloaded from () and mapped to medaka genomic sequence. 82 83 [[Image(rflp.png)]] 84 85 This track presents known Restriction Fragment Length Polymorphism (RFLP) marker downloaded from () and mapped to medaka genomic sequence. 67 86 68 87 == Repeat Element Track == 69 This track displays all the repeat elements in medaka genome fixed by repeatmasker (ref), RepBase(ref) and de novo repeat finding tool(ref). The repeat element’s region is displayed by a rectangular box. 88 [[Image(repeat.png)]] 89 90 This track displays all the repeat elements in medaka genome fixed by repeatmasker (ref), RepBase(ref) and de novo repeat finding tool(ref). The repeat element’s region is displayed by a rectangular box. 70 91 71 92 == HNI alignment Track == 72 This track displays all the polymorphisms regions between medaka Hd-rR and HNI strain. 93 94 [[Image(HNI.png)]] 95 96 This track displays all the polymorphisms regions between medaka Hd-rR and HNI strain. 73 97 74 98 == Ensembel Predicted gene Track == 75 This track displays medaka genes predicted on Enembel(ref) pipe line. The gene region is displayed by line and the bac ends are shown in rectangular box. The arrow sign shows the plus or minus strand of the genome. 99 100 [[Image(enspred.png)]] 101 102 This track displays medaka genes predicted on Enembel(ref) pipe line. The gene region is displayed by line and the bac ends are shown in rectangular box. The arrow sign shows the plus or minus strand of the genome. 76 103 77 104 == Homology Track == 78 Homologues genes of medaka-human, medaka-zebrafish, medaka-tetraodon, medaka-fugu are displayed in different tracks. 105 [[Image(homo.png)]] 106 107 Homologues genes of medaka-human, medaka-zebrafish, medaka-tetraodon, medaka-fugu are displayed in different tracks. 79 108 80 109 == Chromosome Overview ==
