Locus 10061

Sequence ID 3R_DroMel_CAF1
Location 26,951,577 – 26,951,685
Length 108
Max. P 0.990804
window16025 window16026

overview

Window 5

Location 26,951,577 – 26,951,673
Length 96
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 76.35
Mean single sequence MFE -37.03
Consensus MFE -22.15
Energy contribution -22.15
Covariance contribution 0.00
Combinations/Pair 1.24
Mean z-score -2.01
Structure conservation index 0.60
SVM decision value 0.88
SVM RNA-class probability 0.873966
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26951577 96 + 27905053
AUCUAUCACUGGGAUC-----------------------UGGCAAAGAUCGCGAUGAUAUCUCCCA-GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGCGGCACCUCGUGAUCGAUCCAA
...........(((((-----------------------.......((((((((.(....((.(((-((...((((((........)))))).))))).))..).))))))))))))).. ( -29.61)
>DroSec_CAF1 19260 117 + 1
AUCUAUCACUUGGAUCUCCUUGGUGGUCAACAAA--AAAUGGCAAAGAUCGCGAUGGUAUCUCCCA-GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGGGGCACCUCGUGAUCGAUCCAA
..........((((((.........((((.....--...))))...((((((((.(((..((((((-((...((((((........)))))).)))))))).))))))))))))))))). ( -47.20)
>DroSim_CAF1 19314 119 + 1
AUCUAUCACUAAGAUCUCUUUGGUGGUCAACAAAAAAAAUGGCAAAGAUCGCGAUGGUAUCUCCCA-GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGCGGCACCUCGUGAUCGAUCCAA
....(((((((((.....)))))))))............(((....((((((((.(((..(..(((-((...((((((........)))))).))))).)..)))))))))))...))). ( -39.80)
>DroAna_CAF1 19349 109 + 1
AUCUAUCACUGGGAUCUG---------AGAAAAA--AAAUGGCAAGUUUUGCGAUUGUAUCUUCAGCUCGGGUUGGUCUCUGGUCUGGCCAGAUUUGGUCGCACCUUGUGAUCGAUCUAA
............((.(((---------((.....--.(((.(((.....))).))).....))))).))(((((((((.(.(((.(((((......))))).)))..).))))))))).. ( -31.50)
>consensus
AUCUAUCACUGGGAUCUC_________CAACAAA__AAAUGGCAAAGAUCGCGAUGGUAUCUCCCA_GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGCGGCACCUCGUGAUCGAUCCAA
((((.......))))........................(((....((((((((.(((..(.((....((..((((((........))))))..)))).)..)))))))))))...))). (-22.15 = -22.15 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 26,951,594 – 26,951,685
Length 91
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.66
Mean single sequence MFE -35.54
Consensus MFE -14.78
Energy contribution -17.54
Covariance contribution 2.76
Combinations/Pair 1.23
Mean z-score -2.34
Structure conservation index 0.42
SVM decision value 2.23
SVM RNA-class probability 0.990804
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26951594 91 + 27905053
GGCAAAGAUCGCGAUGAUAUCUCCCA-GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGCGGCACCUCGUGAUCGAUCCAACUGGACUG-----ACAA-----------------------
......((((((((.(....((.(((-((...((((((........)))))).))))).))..).))))))))..(((....)))...-----....----------------------- ( -27.40)
>DroSec_CAF1 19298 91 + 1
GGCAAAGAUCGCGAUGGUAUCUCCCA-GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGGGGCACCUCGUGAUCGAUCCAACUGGACUG-----CCAA-----------------------
((((..((((((((.(((..((((((-((...((((((........)))))).)))))))).)))))))))))..(((....))).))-----))..----------------------- ( -44.50)
>DroSim_CAF1 19354 91 + 1
GGCAAAGAUCGCGAUGGUAUCUCCCA-GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGCGGCACCUCGUGAUCGAUCCAACUGGACUG-----CCAA-----------------------
((((..((((((((.(((..(..(((-((...((((((........)))))).))))).)..)))))))))))..(((....))).))-----))..----------------------- ( -39.30)
>DroEre_CAF1 22007 73 + 1
GGCAAAGAUUGCGAUGGA-------------------CCCUCGUUUUUCCAGAUCUGCUGGCACCUCGUGAUCGAUCCAACUGGAUUG-----CCAA-----------------------
(((...(((..(((.(((-------------------(....))....((((.....))))..)))))..)))(((((....))))))-----))..----------------------- ( -24.20)
>DroAna_CAF1 19378 120 + 1
GGCAAGUUUUGCGAUUGUAUCUUCAGCUCGGGUUGGUCUCUGGUCUGGCCAGAUUUGGUCGCACCUUGUGAUCGAUCUAACUGGAUUGGAGUGCCGACUUCACAACAAGAUCACAGGUUC
.(((.....)))..(((((((((......(((((((((((..(((..(..(((((.((((((.....)))))))))))..)..)))..))).))))))))......))))).)))).... ( -42.30)
>consensus
GGCAAAGAUCGCGAUGGUAUCUCCCA_GGGGCUUGGACCCUCGUUUGUCCAGAUCUGGCGGCACCUCGUGAUCGAUCCAACUGGACUG_____CCAA_______________________
......((((((((.(((.((.((....((..((((((........))))))..)))).)).)))))))))))..(((....)))................................... (-14.78 = -17.54 +   2.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:48:03 2006