Hi,
I got the following strange pileup results and I am at a loss what to do.
My data is RNA-SEQ and sam file was generated by using Tophat ( ver1.0.14 )
Is there anyone who had similar result or have any idea to solve this problem ?
Thanks
Corthay
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Supercontig4 3775441 A A 36 0 60 3 .., EGD
Supercontig4 3775442 A A 36 0 60 3 .., FGC
Supercontig4 3775443 C C 36 0 60 3 .., EGB
Supercontig4 3775444 G G 36 0 60 3 .., FGD
Supercontig4 3775445 G G 36 0 60 3 .., GGD
Supercontig4 3775446 A A 36 0 19 30 ^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G.., G>GCFGEGFGDGGGD>?E=3EEF#BE?AEB
Supercontig4 3775447 A A 117 0 19 30 ............................., G?GCGGEGGGDGGGBCBFB<BBG#?DBEGE
Supercontig4 3775448 G G 36 0 19 30 TTTTTTTTTTTTTTTTTTTTTTTTTTT.., F>G5EDBBEGDFGGBA?D@-B?D#??AEGE
Supercontig4 3775449 A A 36 0 19 30 CCCCCCCCCCCCCCCCCCCCCCCCCCC.., G:GBFGCGGGCGGFECCA:?B5D?BDCEGE
Supercontig4 3775450 A A 36 0 19 30 GGGGGGGGGGGGGGGGGGGGGGGGGGG.., G<G?GGEGGG?GGGDCEB::BAFA@ECBDD
Supercontig4 3775451 T T 36 0 19 30 AAAAAAAAAAAAAAAAAAAAAAAAAAA.., GBGDGGEGGG?GGGEBCDB?:?GA?G?BGA
-----------------------------------------------------------
I got the following strange pileup results and I am at a loss what to do.
My data is RNA-SEQ and sam file was generated by using Tophat ( ver1.0.14 )
Is there anyone who had similar result or have any idea to solve this problem ?
Thanks
Corthay
-----------------------------------------------------------
Supercontig4 3775441 A A 36 0 60 3 .., EGD
Supercontig4 3775442 A A 36 0 60 3 .., FGC
Supercontig4 3775443 C C 36 0 60 3 .., EGB
Supercontig4 3775444 G G 36 0 60 3 .., FGD
Supercontig4 3775445 G G 36 0 60 3 .., GGD
Supercontig4 3775446 A A 36 0 19 30 ^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G^"G.., G>GCFGEGFGDGGGD>?E=3EEF#BE?AEB
Supercontig4 3775447 A A 117 0 19 30 ............................., G?GCGGEGGGDGGGBCBFB<BBG#?DBEGE
Supercontig4 3775448 G G 36 0 19 30 TTTTTTTTTTTTTTTTTTTTTTTTTTT.., F>G5EDBBEGDFGGBA?D@-B?D#??AEGE
Supercontig4 3775449 A A 36 0 19 30 CCCCCCCCCCCCCCCCCCCCCCCCCCC.., G:GBFGCGGGCGGFECCA:?B5D?BDCEGE
Supercontig4 3775450 A A 36 0 19 30 GGGGGGGGGGGGGGGGGGGGGGGGGGG.., G<G?GGEGGG?GGGDCEB::BAFA@ECBDD
Supercontig4 3775451 T T 36 0 19 30 AAAAAAAAAAAAAAAAAAAAAAAAAAA.., GBGDGGEGGG?GGGEBCDB?:?GA?G?BGA
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