Locus 90

Sequence ID 4_DroMel_CAF1
Location 669,970 – 670,088
Length 118
Max. P 0.982807
window142

overview

Window 2

Location 669,970 – 670,088
Length 118
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 96.12
Mean single sequence MFE -24.02
Consensus MFE -20.96
Energy contribution -21.12
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.95
Structure conservation index 0.87
SVM decision value 1.93
SVM RNA-class probability 0.982807
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 669970 118 - 1281640
GCAUGCAAACUCAUUUGGUAAAUUACACAUUAAUAAA-UAUGUAUUACAACAACUAUACAUAUGUUUAUGGAAAAUAAAAAUUUUCAGUAACGACUGAAGUCGAGUGUCGGUAGCAUUA
((.(((..((((.((..((...((((.(((......(-(((((((..........))))))))....)))((((((....)))))).))))..))..))...))))....))))).... ( -24.70)
>DroSec_CAF1 2478 118 - 1
GCAUGCAAACUCAUUUGGUAAAUUACACAUUAAUAAA-UAUGUAUUACAACAACUAUGCAUAUGUUUAUGGAAAAUAAAAAUUUUCAGUAACGACUGAAGUCGAGUGUCGGUAGCAUUA
((.(((..((((.((..((...((((.(((......(-(((((((..........))))))))....)))((((((....)))))).))))..))..))...))))....))))).... ( -24.70)
>DroSim_CAF1 590 118 - 1
GCAUGCAAACUCAUUUGGUAAAUUACACAUUAAUAAA-UAUGUAUUACAACAACUAUGCAUAUGUUUAUGGAAAAUAAAAAUUUUCAGUAACGACUGAAGUCGAGUGUCGGUAGCAUUA
((.(((..((((.((..((...((((.(((......(-(((((((..........))))))))....)))((((((....)))))).))))..))..))...))))....))))).... ( -24.70)
>DroEre_CAF1 12283 119 - 1
GCAUGCAAACUCAUAUGGUAAAUUACACAUUAAUAAAUUAUGUAUUGCAACACCUAUACAUAUGUUUAUGGAAAAUAAAAAUUUUCAGUAACGACUGAAGUCGAGUGUCGGUAGCAUUA
((.(((((....(((((((..((((.....))))..))))))).)))))..(((.((((......((((.((((((....)))))).))))((((....)))).)))).))).)).... ( -23.60)
>DroYak_CAF1 476 116 - 1
---UGCAAACUCAUAUGGUAACUUACACAUUAAUAAAUUAUGUAUUGCAACACCUAUACAUAUGUUUAUGGAAAAUAAAAAUUUUCAGUAACGACUGAAGUCGAGUGUCGGUAGCAUUA
---(((..(((.....))).(((.((((....(((((((((((((..........))))))).)))))).((((((....)))))).....((((....)))).)))).))).)))... ( -22.40)
>consensus
GCAUGCAAACUCAUUUGGUAAAUUACACAUUAAUAAA_UAUGUAUUACAACAACUAUACAUAUGUUUAUGGAAAAUAAAAAUUUUCAGUAACGACUGAAGUCGAGUGUCGGUAGCAUUA
((.(((..((((..........((((.(((.((((...(((((((..........))))))))))).)))((((((....)))))).)))).(((....)))))))....))))).... (-20.96 = -21.12 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:21 2006