Locus 5900

Sequence ID 2R_DroMel_CAF1
Location 18,624,744 – 18,624,847
Length 103
Max. P 0.941468
window9472

overview

Window 2

Location 18,624,744 – 18,624,847
Length 103
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 90.72
Mean single sequence MFE -29.30
Consensus MFE -23.08
Energy contribution -22.76
Covariance contribution -0.32
Combinations/Pair 1.09
Mean z-score -2.14
Structure conservation index 0.79
SVM decision value 1.32
SVM RNA-class probability 0.941468
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18624744 103 - 20766785
GCCGAAGUCAGGCCAAUUUGUGGCCACUAAUUCGGCACUUGAAUAGUCACUUGAGAGAGAGAGAGAGGAAAGCUGC--UAGAGACCGGGAAAACAGGGGAAACUG
.(((..(((.(((((.....))))).....((..((((((......((.(((....))).)).......))).)))--..))))))))........((....)). ( -26.92)
>DroSec_CAF1 35535 97 - 1
GCCGAAGUCAGGCCAAUUUGUGGCCACUAAUUCGGCACUUGAAUAGUCACUUGAGAGAGAG------AAAAGCUGU--GAGAGGCCGGGAAAACAGGGGAAACUG
.((....((.(((((.....)))))......(((((.(((..((((((.(((....))).)------....)))))--..)))))))))).....))(....).. ( -29.50)
>DroSim_CAF1 30087 97 - 1
GCCGAAGUCAGGCCAAUUUGUGGCCACUAAUUCGGCACUUGAAUAGUCACUUGAGAGAGAG------AAAAGCUGC--GAGAGACCGGGAAAACAGGGGAAACUG
((((((....(((((.....))))).....)))))).((((.....((.(((....))).)------).......)--)))...((.(.....).))(....).. ( -28.20)
>DroEre_CAF1 37697 97 - 1
GCCGAAGUCGGGCCAAUUUGUGGCCACUAAUUCGGCACUUGAAUAGUCACUUCAGAGGGAG------AAAAGCUGG--AAGAGACUGGCGAAACAGGGGAAACUG
((((((....(((((.....))))).....)))))).((((..(((((.((((...((...------.....)).)--))).)))))......))))(....).. ( -32.60)
>DroYak_CAF1 34360 96 - 1
GCCGAAGUCAGGCCAAUUUGUGGCCACUAAUUCGGCACUUGAAUAGUCACUUGAGAGAGAG------AAAAGCUGUGAGAGAGACUGGGAAAACAGGGGAAA---
((((((....(((((.....))))).....)))))).(((..((((((.(((....))).)------....)))))..)))...(((......)))......--- ( -29.30)
>consensus
GCCGAAGUCAGGCCAAUUUGUGGCCACUAAUUCGGCACUUGAAUAGUCACUUGAGAGAGAG______AAAAGCUGC__GAGAGACCGGGAAAACAGGGGAAACUG
((((((....(((((.....))))).....)))))).((((....(((.(((....))).............((.....)).)))........))))........ (-23.08 = -22.76 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:39 2006