Locus 10025

Sequence ID 3R_DroMel_CAF1
Location 26,818,394 – 26,818,497
Length 103
Max. P 0.595236
window15973

overview

Window 3

Location 26,818,394 – 26,818,497
Length 103
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 71.22
Mean single sequence MFE -19.51
Consensus MFE -3.09
Energy contribution -5.65
Covariance contribution 2.56
Combinations/Pair 1.21
Mean z-score -1.64
Structure conservation index 0.16
SVM decision value 0.12
SVM RNA-class probability 0.595236
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26818394 103 + 27905053
GUCUCCAGUUCUUAUAUUUUGA--AUAAGUGUGCCACUUUAGAUAUUGCAUUUAUGUUAUAAAAAAAAGAUAUUUACAUAAUGUC--UAUCCUCGAGUGCCACAUUA
.......((((.........))--)).((((((.(((((.((.(((.(((....))).)))......(((((((.....))))))--)...)).))))).)))))). ( -19.40)
>DroSec_CAF1 27062 101 + 1
GUCUCCAAUUCUUAUAUCUUGA--UUAAGUGUGCCACUUUAGAUAUUGCAUUUAUGUUAUAAA--AAAGAUAUUUACACAAUGUC--UAUCCUCGAGUGCCACAUUA
......................--...((((((.((((((((((((((.....(((((.....--...))))).....)))))))--)).....))))).)))))). ( -20.70)
>DroSim_CAF1 27349 101 + 1
GUCUCCAAUUCUUAUAUUUAGA--UUAAGUGUGCCACUUUAGAUAUUGCAUUUAUGUUAUAAA--AAAGAUAUUUACACAAUGUC--UAUCCUCGAGUGCCACAUUA
......................--...((((((.((((((((((((((.....(((((.....--...))))).....)))))))--)).....))))).)))))). ( -20.70)
>DroEre_CAF1 31475 88 + 1
AGCUGCG-CUGUUAUAUUUUGA--UUAGGCGACCCACUUUAGAUAUUGCCCUUCU----------------ACUUACAUAAGGUCGCUAUUCUCAAGAGCCGGAUAA
..(((.(-((.......(((((--...(((((((.....((((.........)))----------------).........)))))))....))))))))))).... ( -16.85)
>DroYak_CAF1 37388 97 + 1
AGCUGAA-CUGUG-GAUUCAGAUAUUAGAUG------UAUAUAUAUUGCACUUUUGUUAUAUA--AAAGAUAGCUACAUAAGGUCUCCAUUCUGAAAUGCCACAUGA
.......-.((((-(.((((((....(((((------((.......))).(((.(((..(((.--....)))...))).)))))))....))))))...)))))... ( -19.90)
>consensus
GUCUCCA_UUCUUAUAUUUUGA__UUAAGUGUGCCACUUUAGAUAUUGCAUUUAUGUUAUAAA__AAAGAUAUUUACAUAAUGUC__UAUCCUCGAGUGCCACAUUA
............................(((((.(((((..((((..(((((...........................)))))...))))...))))).))))).. ( -3.09 =  -5.65 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:47:15 2006