Locus 1821

Sequence ID 2L_DroMel_CAF1
Location 5,023,949 – 5,024,072
Length 123
Max. P 0.686008
window2924 window2925

overview

Window 4

Location 5,023,949 – 5,024,042
Length 93
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 89.40
Mean single sequence MFE -29.97
Consensus MFE -26.91
Energy contribution -26.56
Covariance contribution -0.36
Combinations/Pair 1.08
Mean z-score -1.71
Structure conservation index 0.90
SVM decision value 0.32
SVM RNA-class probability 0.686008
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5023949 93 + 22407834
AUCAUUGUUGUCCGAGCUCC-GAGCUGCUGCCC--CCGCUCUU-CGUUUUCUUGGGCGGUCUUCAGUUGGAUCGAAAUCCCCUCCACCAGCUGGACA
........(((((.((((..-(((..((((...--((((((..-.........))))))....)))).((((....)))).)))....))))))))) ( -26.60)
>DroSec_CAF1 8271 89 + 1
AUCAUUGUUGUCCGAGCUCCGGAGCUGCUGCCC--CCGCUCUCCCGUUUUCUUGGGCGGUCUCCAGUUGGAU------ACCCUCCUCCAGCUGGACA
.......(((((((((..(.((((..((.....--..)).)))).)....)))))))))..((((((((((.------.......)))))))))).. ( -32.40)
>DroSim_CAF1 6579 91 + 1
AUCAUUGUUGUCCGAGCUCCGGAGCUGCUGCCCCCCCGCUCUCCCGUUUUCUUGGGCGGUCUCCAGUUGGAC------ACCCUCCACCAGCUGGACA
........(((((.((((..((((..(((((((....((......))......))))))))))).(.((((.------....)))).)))))))))) ( -30.90)
>consensus
AUCAUUGUUGUCCGAGCUCCGGAGCUGCUGCCC__CCGCUCUCCCGUUUUCUUGGGCGGUCUCCAGUUGGAU______ACCCUCCACCAGCUGGACA
.......(((((((((..(.((((..((.........)).)))).)....)))))))))..(((((((((................))))))))).. (-26.91 = -26.56 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 5,023,969 – 5,024,072
Length 103
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 89.03
Mean single sequence MFE -33.00
Consensus MFE -31.18
Energy contribution -30.96
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.24
Structure conservation index 0.94
SVM decision value 0.10
SVM RNA-class probability 0.583512
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5023969 103 + 22407834
GAGCUGCUGCCC--CCGCUCUU-CGUUUUCUUGGGCGGUCUUCAGUUGGAUCGAAAUCCCCUCCACCAGCUGGACACCCAUCACCAGUUGGCCCCGCUCAGUCUGG
((((.((((...--((((((..-.........))))))....)))).((((....))))......((((((((..........))))))))....))))....... ( -31.70)
>DroSec_CAF1 8292 98 + 1
GAGCUGCUGCCC--CCGCUCUCCCGUUUUCUUGGGCGGUCUCCAGUUGGAU------ACCCUCCUCCAGCUGGACACCCACACCCAGUUGGCCCCGCUCAGUCUGG
((((........--..)))).((((......)))).(((.((((((((((.------.......)))))))))).))).....(((((((((...)).))).)))) ( -35.00)
>DroSim_CAF1 6600 100 + 1
GAGCUGCUGCCCCCCCGCUCUCCCGUUUUCUUGGGCGGUCUCCAGUUGGAC------ACCCUCCACCAGCUGGACACCCACACCCAGUUGGCCCCGCUCAGUCUGG
((((............)))).((((......)))).(((.(((((((((..------........))))))))).))).....(((((((((...)).))).)))) ( -32.30)
>consensus
GAGCUGCUGCCC__CCGCUCUCCCGUUUUCUUGGGCGGUCUCCAGUUGGAU______ACCCUCCACCAGCUGGACACCCACACCCAGUUGGCCCCGCUCAGUCUGG
((((.(..(((.....((((............))))(((.(((((((((................))))))))).)))...........)))..)))))....... (-31.18 = -30.96 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:02 2006