Locus 6266

Sequence ID X_DroMel_CAF1
Location 15,929,845 – 15,929,958
Length 113
Max. P 0.541543
window10212

overview

Window 2

Location 15,929,845 – 15,929,958
Length 113
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 87.97
Mean single sequence MFE -31.30
Consensus MFE -23.92
Energy contribution -25.56
Covariance contribution 1.64
Combinations/Pair 1.03
Mean z-score -1.51
Structure conservation index 0.76
SVM decision value 0.02
SVM RNA-class probability 0.541543
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15929845 113 - 22224390
AGUACA--CAUA---CACCUACUUUGUGUUGGGAAACAAGGGG-CCGUUGUCUUUGGACCUCUUAAAAGUAGAAUGUAAACCAGCUACUUUAGUAUAUUGAUAGCCGAGCCCCGGGUAA
......--....---.((((...........(....)..((((-((((((((..((.....((..(((((((...(....)...)))))))))..))..))))).)).))))))))).. ( -28.20)
>DroSec_CAF1 28384 113 - 1
AGUACA--AAUA---CACCUACUUGGUGUUCGGAAACAAGGGG-CCGUUGUCUUUGGACCUCUCAAAAGUAGAAUGUAAACCAGCUACUUUAGUAUAUUGAUAGCCGAGCCCCGGGUAA
......--....---....(((((((.((((((...(((((((-(((.......))).))))...(((((((...(....)...)))))))......)))....)))))).))))))). ( -32.50)
>DroSim_CAF1 13552 113 - 1
AGUAGC--AAUA---CACCUACUUGGUGUUCGGAAACAAGGGG-CCGUUGUCUUUGGACCUCUUAAAAGUAGAAUGUAAACCAGCUACUUUAGUAUAUUGAUAGCCGAGCCCCGGGUAA
.(((..--..))---)...(((((((.((((((....((((((-(((.......))).)))))).(((((((...(....)...))))))).............)))))).))))))). ( -36.30)
>DroEre_CAF1 21714 119 - 1
AAUAGGUACUUAUUCCAUCUACUUAAUGAUCGAAAACAAGGGGCCCGAUGUCUUUAGACCUCUGAAAAGUAGAAUGUAAAGCAGCUACUUUAGUAUAUUGAUAGACGAGCCCCGGGUAA
......(((((.(((.(((........))).))).....(((((.((.((((.((((....))))(((((((..((.....)).)))))))........))))..)).)))))))))). ( -29.70)
>DroYak_CAF1 12687 116 - 1
AGUACCUACAUAUUC---CUACUUGGUGUUCGGAAACAAGGGGACCGUUGUCUUUAGACCCCUGAAAAGUAGAAUGUAAACCAGCUACUUAAGUGUAUUGAUAGCCGAGCCCCGGGUAA
...............---.(((((((.((((((.....(((((....(((....))).)))))...((((((...(....)...))))))..............)))))).))))))). ( -29.80)
>consensus
AGUACA__CAUA___CACCUACUUGGUGUUCGGAAACAAGGGG_CCGUUGUCUUUGGACCUCUGAAAAGUAGAAUGUAAACCAGCUACUUUAGUAUAUUGAUAGCCGAGCCCCGGGUAA
...................(((((((.((((((.....(((((.(((.......))).)))))..(((((((..((.....)).))))))).............)))))).))))))). (-23.92 = -25.56 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:07 2006