Locus 8789

Sequence ID 3R_DroMel_CAF1
Location 23,481,738 – 23,481,828
Length 90
Max. P 0.661077
window14118

overview

Window 8

Location 23,481,738 – 23,481,828
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 86.99
Mean single sequence MFE -20.90
Consensus MFE -18.62
Energy contribution -18.90
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.45
Structure conservation index 0.89
SVM decision value 0.27
SVM RNA-class probability 0.661077
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23481738 90 + 27905053
UUCUAAAGCACACGCGGCGUAUGCGUAAUGCGCUGUGAAGUCACUUUUACUUACUAAAUUCAGGUAAAUACCACAUAACUGCACACAUAG
.......(((..((((((((((.....))))))))))..((....(((((((.........)))))))....)).....)))........ ( -21.10)
>DroSec_CAF1 80994 88 + 1
UUCUAAAGCACACACGGCGUAUGCGUAAUGCGCUGUGAAGUCACUUUAACUUACUAAAUUCAGGUA--UACCAGGUAACUGCACAUAUAG
.......((...((((((((((.....)))))))))).(((.((((.....((((.......))))--....)))).)))))........ ( -22.60)
>DroSim_CAF1 69416 88 + 1
UUCUAAAGCACACACGGCGUAUGCGUAAUGCGCUGUGAAGUCACUUUAACUUACUAAAUUCAGGUA--UACCAGGUAACUGCACAUAUAG
.......((...((((((((((.....)))))))))).(((.((((.....((((.......))))--....)))).)))))........ ( -22.60)
>DroEre_CAF1 71873 80 + 1
UGCUGAAGCACACACGGCGUAUGCGUGAUGCGCUGCGAAGUCACUUUUACU-GCUAAAUUCAGGUG--UACCAUA---UUGCACA----G
..(((((((...(.((((((((.....)))))))).).(((.......)))-)))....))))(((--((.....---.))))).----. ( -20.30)
>DroYak_CAF1 72045 84 + 1
UUCUAAAGCACACACGGCGUAUGCGUAAUGCGCUAUGAAGUCACUUUAACU-GCUAAAUUCAGGUG--UACCAAG---CUGCACAUAUGG
......(((...((..((((((.....))))))..)).(((.......)))-))).....((.(((--((.....---.)))))...)). ( -17.90)
>consensus
UUCUAAAGCACACACGGCGUAUGCGUAAUGCGCUGUGAAGUCACUUUAACUUACUAAAUUCAGGUA__UACCAGGUAACUGCACAUAUAG
.......(((..((((((((((.....)))))))))).........................(((....))).......)))........ (-18.62 = -18.90 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:49 2006