Locus 8866

Sequence ID 3R_DroMel_CAF1
Location 23,805,701 – 23,805,818
Length 117
Max. P 0.939788
window14231

overview

Window 1

Location 23,805,701 – 23,805,818
Length 117
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 89.05
Mean single sequence MFE -29.16
Consensus MFE -22.46
Energy contribution -23.76
Covariance contribution 1.30
Combinations/Pair 1.18
Mean z-score -2.25
Structure conservation index 0.77
SVM decision value 1.28
SVM RNA-class probability 0.939788
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23805701 117 + 27905053
GGUGGAAAUUGAAUAAGUACGACGGCUUCAUUGAGCUCAAAUAAUUGAGUUGC-GUGAGGUUUCCAAUAGCUAAUUUAGGAAACAAUAGUUAAAGAUUGACGG-UGAUUUAAUAACUGA
(((....(((((((.....((..((((((((..(((((((....)))))))..-))))))))..((((...(((((..(....)...)))))...)))).)).-..))))))).))).. ( -23.80)
>DroSec_CAF1 11025 118 + 1
GGUGGAAAUUGAAUAAAUGCGACGGCUUCAUUGGGCUCAAAUAAUUGAGUUGCAGUGAGGUUUCCAAGAGCUAAUUUAGGAAACAAUAGUUAAAAGUUGACGG-UGAUUCAAUAACUGA
(((....(((((((...((((((...((((((((((((((....))))))).)))))))((((((.(((.....))).))))))...........)))).)).-..))))))).))).. ( -31.60)
>DroSim_CAF1 11075 118 + 1
GGUGGAAAAUGAAUAAAUGCGACGGCUUCAUUGAGCUCAAAUAAUUGAGUUGCAGUGAGGUUUCCAAGAGCUAAUUUAGAAAACAAUAGUUAAAAGUUGACGG-UGAUUCAAUAACUGA
.........(((((...(((((((((((((((((((((((....))))))).))))))))))......(((((.............)))))....)))).)).-..)))))........ ( -27.82)
>DroEre_CAF1 11273 116 + 1
GGUGGAAAUUGAAUAAAUGCAACGGCUUCAUUGAGCUCAAGUAAUUGAGUUGCAGUAAGGUUGCCAAGAUCUAAUUUAGGAAACAACAGCUAAAAGUUGGCGGA---UACCAUUACUAA
(((((.............(((((..(((.(((((((((((....))))))).))))))))))))....((((......(....)..((((.....))))..)))---).)))))..... ( -28.80)
>DroYak_CAF1 11568 119 + 1
GGUGGAAAUUGAAUAAAUGCAACGGCUUCAUUGAGCUCAAAUAAUUGAGUUGCGAUGAGGUUUCCAAGAGCUAAUUUGGGAAACAAUAGCUAAAAGUUGUCGGAUGAUUCCAUUACUAA
(((((.............((((((((((((((((((((((....))))))).))))))))))......(((((.....(....)..)))))....))))).(((....))).))))).. ( -33.80)
>consensus
GGUGGAAAUUGAAUAAAUGCGACGGCUUCAUUGAGCUCAAAUAAUUGAGUUGCAGUGAGGUUUCCAAGAGCUAAUUUAGGAAACAAUAGUUAAAAGUUGACGG_UGAUUCAAUAACUGA
..(((..(((((((...(((((((((((((((((((((((....))))))).))))))))))......(((((.....(....)..)))))....)))).))....)))))))..))). (-22.46 = -23.76 +   1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:35 2006