Locus 4033

Sequence ID 2L_DroMel_CAF1
Location 11,693,734 – 11,693,885
Length 151
Max. P 0.957642
window6354 window6355

overview

Window 4

Location 11,693,734 – 11,693,852
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.33
Mean single sequence MFE -28.62
Consensus MFE -16.82
Energy contribution -17.06
Covariance contribution 0.24
Combinations/Pair 1.17
Mean z-score -2.21
Structure conservation index 0.59
SVM decision value 1.48
SVM RNA-class probability 0.957642
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11693734 118 - 22407834
GAUGGUGUGACUUUCCCCAGCUUCGCUGUUUUGUAUACUUAUAUAAUAGUAGAUAAUAGAAUAGCUAUUCUUCAGGGGCAAUACAUAUUUCGGAAAUAGUUUUUCAAAGGGAAACUGA--
((..(((((..((.((((((..(.((((((((((.((((........))))....)))))))))).)..))...)))).)))))))...)).....((((((((.....)))))))).-- ( -27.20)
>DroSec_CAF1 155197 105 - 1
GAUGGUGUAACUUUCCCCAGCAUCGCUGUUUUGUACACC-------------AUAAUAGAAUAGCUAUUCUUCAGGGGCAAUACACAUUUCGGAAAUGUUUUUUCCAAGGGAAACUGU--
((..(((((..((.((((((.((.((((((((((.....-------------...)))))))))).)).))...)))).)))))))...))(((((.....)))))..((....))..-- ( -29.30)
>DroSim_CAF1 152777 105 - 1
GAUGGUGUAACUUUCCCCAGCAUCGCUGUUUUGUACACC-------------AUAAUAGAAUAGCUAUUCUUCAGGGGCAAUACACAUUUCGGAAAUGGUUUUUCCAGGGGAAACUGU--
((..(((((..((.((((((.((.((((((((((.....-------------...)))))))))).)).))...)))).)))))))...))(((((.....)))))..((....))..-- ( -29.40)
>DroEre_CAF1 178255 93 - 1
GAUGGAGUAACUUUCUGCAGCUUCGCUGUUUUGUAGAGC-------------GUAAUAGAAUAG-------------GAAAUAUU-UAGUCGGAAAUGGUUUUUCGAGAGGAAACUGUUA
(((.(((((.(((((((..((((..(......)..))))-------------....))))).))-------------....))))-).)))(((((....)))))((.((....)).)). ( -19.60)
>DroYak_CAF1 151838 107 - 1
GAUGGAGUAACUUUCCCCUGCUUCGCUGUUUGGUAGACC-------------AUAAUAUAAUAGCGAUUCCUAAGGGGAAAUACUCUUUUCGGAAAUUGUUUUUCGAAAGGAAACUGUUA
(((((.(((..((((((((...(((((((((((....))-------------)......))))))))......)))))))))))((((((((((((....))))))))))))..))))). ( -37.60)
>consensus
GAUGGUGUAACUUUCCCCAGCUUCGCUGUUUUGUACACC_____________AUAAUAGAAUAGCUAUUCUUCAGGGGCAAUACACAUUUCGGAAAUGGUUUUUCCAAGGGAAACUGU__
((..(((((..((.((((......((((((((((.....................)))))))))).........)))).)))))))...))(((((....)))))...((....)).... (-16.82 = -17.06 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,693,772 – 11,693,885
Length 113
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 79.53
Mean single sequence MFE -30.14
Consensus MFE -18.62
Energy contribution -19.94
Covariance contribution 1.32
Combinations/Pair 1.12
Mean z-score -1.70
Structure conservation index 0.62
SVM decision value 0.10
SVM RNA-class probability 0.585656
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11693772 113 - 22407834
--CGAAUACGCGGCAGGACAUCAGCCGCAAGUCCUGAUGGUGUGACUUUCCCCAGCUUCGCUGUUUUGUAUACUUAUAUAAUAGUAGAUAAUAGAAUAGCUAUUCUUCAGGGGCA
--....(((((.(((((((...........)))))).).))))).....((((((..(.((((((((((.((((........))))....)))))))))).)..))...)))).. ( -31.60)
>DroSec_CAF1 155235 100 - 1
--CGAAUACGCGGCAGGACAUCAGCCGCAAGUCCUGAUGGUGUAACUUUCCCCAGCAUCGCUGUUUUGUACACC-------------AUAAUAGAAUAGCUAUUCUUCAGGGGCA
--.......(((((.........)))))..(((((((((.((..........)).))))((((((((((.....-------------...)))))))))).........))))). ( -31.20)
>DroSim_CAF1 152815 100 - 1
--CGAAUACGUGGCAGGACAUCAGCCGCAAGUCCUGAUGGUGUAACUUUCCCCAGCAUCGCUGUUUUGUACACC-------------AUAAUAGAAUAGCUAUUCUUCAGGGGCA
--.......(((((.........)))))..(((((((((.((..........)).))))((((((((((.....-------------...)))))))))).........))))). ( -29.30)
>DroEre_CAF1 178294 89 - 1
UUGGGAUACGCGACAGGACAUCAGCUGUAAGUCCUGAUGGAGUAACUUUCUGCAGCUUCGCUGUUUUGUAGAGC-------------GUAAUAGAAUAG-------------GAA
......(((((.((((((((.(((((((((.(((....))).).......)))))))..).))))))))...))-------------))).........-------------... ( -25.41)
>DroYak_CAF1 151878 100 - 1
--CGGAUACGCGGCAGGACAUCAGCUGUAAGUGCUGAUGGAGUAACUUUCCCCUGCUUCGCUGUUUGGUAGACC-------------AUAAUAUAAUAGCGAUUCCUAAGGGGAA
--.(((.....((((((.(((((((.......)))))))(((.....))).))))))(((((((((((....))-------------)......)))))))).)))......... ( -33.20)
>consensus
__CGAAUACGCGGCAGGACAUCAGCCGCAAGUCCUGAUGGUGUAACUUUCCCCAGCUUCGCUGUUUUGUACACC_____________AUAAUAGAAUAGCUAUUCUUCAGGGGCA
......(((((.(((((((...........)))))).).))))).....((((......((((((((((.....................)))))))))).........)))).. (-18.62 = -19.94 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:37 2006