Locus 8280

Sequence ID 3R_DroMel_CAF1
Location 22,144,105 – 22,144,225
Length 120
Max. P 0.998107
window13354

overview

Window 4

Location 22,144,105 – 22,144,225
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -37.40
Consensus MFE -32.34
Energy contribution -33.06
Covariance contribution 0.72
Combinations/Pair 1.05
Mean z-score -2.51
Structure conservation index 0.86
SVM decision value 3.01
SVM RNA-class probability 0.998107
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22144105 120 + 27905053
GAGAAGCAAAACGCGGAAACGCUUGAGCAAACAAAGCCGAGAACCUGAGCUGAGUGUUAAGAUACUUUUAGUGUGGCUUUGCGCGCGGAUUUUUCGCGUUGACAUAAACCAGAGCACUUU
..((((......(((....)))....((...((((((((.....((((...((((((....))))))))))..)))))))).(((((((...)))))))..............)).)))) ( -32.10)
>DroSec_CAF1 74456 120 + 1
GAGAAGCAAAACGCGGAAACGCUUGAGCAAACAAAGCCGAGAACCUGAGCUGAGUGUUAAGAUACUUUAAGUGUGUUUUUGCGCGCGGGUUUUUCGCUUUGACAUAAAUCAGUGCAAUUU
.....(((....(((....)))((((.....((((((.(((((((((......((((.(((((((.......))))))).)))).))))))))).)))))).......)))))))..... ( -39.50)
>DroSim_CAF1 68940 120 + 1
GAGAAGCAAAACGCGGAAACGCUUGAGCAAACAAAGCCGAGAACCUGAGCUGAGUGUUAAGAUACUUUAAGUGUGGUUUUGCGCGCGGGUUUUUCGCUUUGACAUAAAUCAGAGCAAUUU
(((((((.....(((....))).............((((((((((...(((((((((....))))))..)))..)))))).)).))..)))))))(((((((......)))))))..... ( -39.40)
>DroEre_CAF1 69718 119 + 1
GAGAAGCAAAACGCGGAAACGCUUGAGCAAACAAAGCCGAGAACCUGAGCUGAGUGUUAAGAUACUUUAAGUGUGGCUUUGCGCGCGAGUUUUUAGCUUUGACAAAAAUCAGAGCAG-UU
.((((((.....(((....)))(((.((...((((((((.........(((((((((....))))))..))).)))))))).)).))))))))).(((((((......)))))))..-.. ( -36.40)
>DroYak_CAF1 67075 120 + 1
GAGAAGCAAAACGCGGAAACGCUUGAGCAAACAAAGCCGAGAACCUGAGCUGAGUGUUAAGAUACUUUAAGUGUGGUUUUGCGCGCGAGUUUUUCGCUUUGACAUAAAUCAGAGCAAUUU
(((((((.....(((....))).............((((((((((...(((((((((....))))))..)))..)))))).)).))..)))))))(((((((......)))))))..... ( -39.60)
>consensus
GAGAAGCAAAACGCGGAAACGCUUGAGCAAACAAAGCCGAGAACCUGAGCUGAGUGUUAAGAUACUUUAAGUGUGGUUUUGCGCGCGGGUUUUUCGCUUUGACAUAAAUCAGAGCAAUUU
(((((((.....(((....)))(((.((...((((((((.........(((((((((....))))))..))).)))))))).)).))))))))))(((((((......)))))))..... (-32.34 = -33.06 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:47 2006