Locus 4564

Sequence ID 3R_DroMel_CAF1
Location 12,067,092 – 12,067,246
Length 154
Max. P 0.980225
window7465 window7466

overview

Window 5

Location 12,067,092 – 12,067,206
Length 114
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 97.95
Mean single sequence MFE -43.53
Consensus MFE -42.78
Energy contribution -42.90
Covariance contribution 0.12
Combinations/Pair 1.03
Mean z-score -2.30
Structure conservation index 0.98
SVM decision value 1.26
SVM RNA-class probability 0.937817
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12067092 114 - 27905053
CCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGUGUGUGUGUGAGUGGUAUGCGGCGAAGGCAGCGACAAAGCAAACUCAGGCAAAGCGACUGAAACGCUCGCUGGGA
(((((((.((((((((.(((((.....))))))))))))).)))))(((((((((.(((.((....)).))))).........((((.........))))..))))))).)).. ( -43.90)
>DroSec_CAF1 3707 112 - 1
CCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGU--GUGUGUGAGUGGUAUGCGGCGAAGGCAGCGACAAAGCAAACUCAGGCAAAGCGACUGAAACGCUCGCUGGGA
.((((((.((((((((.(((((.....)))))))))))))--.)))))).((.((.(((.((....)).)))))...))...(((((.(..((((.......)))).)))))). ( -42.00)
>DroSim_CAF1 4137 114 - 1
CCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGUGUGUGUGUGAGUGGUAUGCGGCGAAGGCAGCGACAAAGCAAACUCAGGCAAAGCGACUGAAACGCUCGCUGGGA
(((((((.((((((((.(((((.....))))))))))))).)))))(((((((((.(((.((....)).))))).........((((.........))))..))))))).)).. ( -43.90)
>DroYak_CAF1 5765 114 - 1
CCACAUGGGCACAUGCAUGGCAGUCUUUGUCAGUGUGUGUGCGUGUGUGAGUGGCAUGCGGCGAAGGCAGCGACAAAGCAAACUCAGGCAAAGCGACUGAAACGCUCGCUGGGA
(((((((.((((((((.((((((...)))))))))))))).)))))(((((((...(((.((....)).)))...........((((.........))))..))))))).)).. ( -44.30)
>consensus
CCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGUGUGUGUGUGAGUGGUAUGCGGCGAAGGCAGCGACAAAGCAAACUCAGGCAAAGCGACUGAAACGCUCGCUGGGA
(((((((.((((((((.(((((.....))))))))))))).)))))(((((((...(((.((....)).)))...........((((.........))))..))))))).)).. (-42.78 = -42.90 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 12,067,132 – 12,067,246
Length 114
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 97.95
Mean single sequence MFE -43.63
Consensus MFE -43.26
Energy contribution -43.63
Covariance contribution 0.38
Combinations/Pair 1.02
Mean z-score -3.29
Structure conservation index 0.99
SVM decision value 1.86
SVM RNA-class probability 0.980225
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12067132 114 - 27905053
GUAUCGGGUCGUUCGUUUUCGUUUAUAUAAAGGUACAUUUCCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGUGUGUGUGUGAGUGGUAUGCGGCGAAGGCAGCGAC
.......((((((.((((((((((((((.......((((..((((((.((((((((.(((((.....))))))))))))).))))))..))))))))).))))))))))))))) ( -44.51)
>DroSec_CAF1 3747 112 - 1
GUAUCGGGUCGUUCGUUUUCGUUUAUAUAAAGGUACAUUUCCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGU--GUGUGUGAGUGGUAUGCGGCGAAGGCAGCGAC
.......((((((.((((((((((((((.......((((..(((((..((((((((.(((((.....)))))))))))))--)))))..))))))))).))))))))))))))) ( -40.61)
>DroSim_CAF1 4177 114 - 1
GUAUCGGGUCGUUCGUUUUCGUUUAUAUAAAGGUACAUUUCCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGUGUGUGUGUGAGUGGUAUGCGGCGAAGGCAGCGAC
.......((((((.((((((((((((((.......((((..((((((.((((((((.(((((.....))))))))))))).))))))..))))))))).))))))))))))))) ( -44.51)
>DroYak_CAF1 5805 114 - 1
GUAUCGGGUCGUUCGUUUUCGUUUAUAUAAAGGUACAUUUCCACAUGGGCACAUGCAUGGCAGUCUUUGUCAGUGUGUGUGCGUGUGUGAGUGGCAUGCGGCGAAGGCAGCGAC
.......((((((.(((((((((............((((..((((((.((((((((.((((((...)))))))))))))).))))))..))))(....)))))))))))))))) ( -44.90)
>consensus
GUAUCGGGUCGUUCGUUUUCGUUUAUAUAAAGGUACAUUUCCACAUGGGCACAUGCAUGGCAGUCUAUGUCAGUGUGUGUGUGUGUGUGAGUGGUAUGCGGCGAAGGCAGCGAC
.......((((((.((((((((((((((.......((((..((((((.((((((((.(((((.....))))))))))))).))))))..))))))))).))))))))))))))) (-43.26 = -43.63 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:40 2006