Locus 4922

Sequence ID 2R_DroMel_CAF1
Location 16,072,544 – 16,072,640
Length 96
Max. P 0.895007
window7883 window7884

overview

Window 3

Location 16,072,544 – 16,072,640
Length 96
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 87.12
Mean single sequence MFE -29.02
Consensus MFE -19.06
Energy contribution -20.56
Covariance contribution 1.50
Combinations/Pair 1.12
Mean z-score -3.05
Structure conservation index 0.66
SVM decision value 0.98
SVM RNA-class probability 0.895007
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16072544 96 + 20766785
AUAAGCCAUCCAU-UCCAUAUCCACAUUUUCGUCGA----------CACCAACGCAGUCGACUAAUGAUGCAAAUGUCACAAGCGAACAAAGAUCGCUGGCGAUCUC
....(((......-..(((...((((((...(((((----------(.........)))))).)))).))...))).....(((((.......))))))))...... ( -20.90)
>DroSec_CAF1 693 100 + 1
AUACGCCAUCCAU-CCCAUAUCCACAUCUUCGUCGACCG------CCACCAACGCAGUCGACUAAUGAUGCGGAUGUCACAAGCGAACAAAGAACGCUGGCGAUCUC
...((((......-...((((((.((((((.((((((.(------(.......)).)))))).)).)))).))))))....((((.........))))))))..... ( -33.70)
>DroSim_CAF1 690 100 + 1
AUACGCCAUCCAU-CCCAUAUCCACAUCUACGUCGACCG------CCACCAACGCAGUCGACUAAUGAUGCGGAUGUCACAAGCGAACAAAGAACGCUGGCGAUCUC
...((((......-...((((((.((((...((((((.(------(.......)).))))))....)))).))))))....((((.........))))))))..... ( -33.60)
>DroEre_CAF1 774 107 + 1
AUGUGCCAUCCAUAGCCAUAUCCACAUCCUCGUCCACCGCCACCGCCACCAACGCAGUCGACUAAUGAUGCAAGUGUCACAAGCGGACAAAGAGCGGUGGCGAUCUC
(((.((........)))))..................((((((((((......(((.(((.....))))))...((((.......))))..).)))))))))..... ( -27.90)
>consensus
AUACGCCAUCCAU_CCCAUAUCCACAUCUUCGUCGACCG______CCACCAACGCAGUCGACUAAUGAUGCAAAUGUCACAAGCGAACAAAGAACGCUGGCGAUCUC
...((((..........((((((.((((...((((((...................))))))....)))).))))))....((((.........))))))))..... (-19.06 = -20.56 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,072,544 – 16,072,640
Length 96
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 87.12
Mean single sequence MFE -37.72
Consensus MFE -24.01
Energy contribution -25.26
Covariance contribution 1.25
Combinations/Pair 1.08
Mean z-score -2.29
Structure conservation index 0.64
SVM decision value 0.31
SVM RNA-class probability 0.684691
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16072544 96 - 20766785
GAGAUCGCCAGCGAUCUUUGUUCGCUUGUGACAUUUGCAUCAUUAGUCGACUGCGUUGGUG----------UCGACGAAAAUGUGGAUAUGGA-AUGGAUGGCUUAU
......((((((((.......))))(..(..(((.(.((.((((.((((((.((....)))----------)))))...)))))).).)))..-)..).)))).... ( -27.60)
>DroSec_CAF1 693 100 - 1
GAGAUCGCCAGCGUUCUUUGUUCGCUUGUGACAUCCGCAUCAUUAGUCGACUGCGUUGGUGG------CGGUCGACGAAGAUGUGGAUAUGGG-AUGGAUGGCGUAU
.....(((((.((((((....(((....))).(((((((((....(((((((((.......)------))))))))...)))))))))..)))-)))..)))))... ( -42.50)
>DroSim_CAF1 690 100 - 1
GAGAUCGCCAGCGUUCUUUGUUCGCUUGUGACAUCCGCAUCAUUAGUCGACUGCGUUGGUGG------CGGUCGACGUAGAUGUGGAUAUGGG-AUGGAUGGCGUAU
.....(((((.((((((....(((....))).(((((((((....(((((((((.......)------))))))))...)))))))))..)))-)))..)))))... ( -42.50)
>DroEre_CAF1 774 107 - 1
GAGAUCGCCACCGCUCUUUGUCCGCUUGUGACACUUGCAUCAUUAGUCGACUGCGUUGGUGGCGGUGGCGGUGGACGAGGAUGUGGAUAUGGCUAUGGAUGGCACAU
......((((((((((((((((((((.((((........))))..(((.(((((.......)))))))))))))))))))).))))...)))).............. ( -38.30)
>consensus
GAGAUCGCCAGCGUUCUUUGUUCGCUUGUGACAUCCGCAUCAUUAGUCGACUGCGUUGGUGG______CGGUCGACGAAGAUGUGGAUAUGGG_AUGGAUGGCGUAU
......(((((((.........))).......(((((((((....((((((((...............))))))))...)))))))))...........)))).... (-24.01 = -25.26 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:17 2006