Locus 401

Sequence ID 3R_DroMel_CAF1
Location 1,489,000 – 1,489,114
Length 114
Max. P 0.515471
window657

overview

Window 7

Location 1,489,000 – 1,489,114
Length 114
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 78.21
Mean single sequence MFE -31.70
Consensus MFE -22.09
Energy contribution -22.32
Covariance contribution 0.23
Combinations/Pair 1.20
Mean z-score -1.02
Structure conservation index 0.70
SVM decision value -0.04
SVM RNA-class probability 0.515471
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1489000 114 - 27905053
-AUGUGCAGUAGAAUCCAUGAUAAAGAUUCAUCCAAAAAGAAAUACUCACAGAGUAGCCAGGGCAAUGCCGCUCUUGGGAUCCCAAAUCUUGAUGGGUUGCUGGUUGUCCUUGCU
-.((((.(((((((((.........))))).((......))..))))))))....(((.((((((((((.(((((..((((.....))))..).)))).))..)))))))).))) ( -33.50)
>DroGri_CAF1 1822 94 - 1
ACUAUACGGAUGGA------AU-----UUAU----------UAUACUUACAGUGUGGCCAGUGCUAUGCCGCUCUUGGGAUCCCAGAUCUUGAUGGGCUGCUGGUUAUCCUUGCU
.......(((((..------..-----....----------(((((.....)))))((((((((...)).(((((..(((((...)))))..).)))).)))))))))))..... ( -26.20)
>DroSec_CAF1 2311 114 - 1
-AUGUGCGGUAGAAGCCAUGAUGUGAAUUGUUCUAAAAACGAAUACUCACAGAGUAGCCAGGGCAAUGCCGCUCUUGGGAUCCCAAAUCUUGAUGGGUUGCUGGUUGUCCUUGCU
-...((((((....)))....(((((..(((((.......))))).)))))..)))((.((((((((((.(((((..((((.....))))..).)))).))..)))))))).)). ( -34.90)
>DroSim_CAF1 2309 114 - 1
-AUGUGCGGUAGAAGCCACGAUGUGAAUUGUUCUAAAAACGAAUACUCACAGAGUAGCCAGGGCAAUGCCGCUCUUGGGAUCCCAAAUCUUGAUGGGUUGCUGGUUGUCCUUGCU
-......(((....)))((..(((((..(((((.......))))).)))))..))(((.((((((((((.(((((..((((.....))))..).)))).))..)))))))).))) ( -36.30)
>DroEre_CAF1 3050 115 - 1
AAUGUGCGGUAGAAACCAUAAUGAGAUAGAGUUUAAUAACAAAUACUCACAGUGUAGCGAGGGCGAUGCCGCUCUUGGGAUCCCAAAUUUUGAUGGGUUGCUGGUUGUCCUUACU
...(((.((....(((((...((((.((..(((....)))...))))))....((((((((((((....))))))))....((((........)))))))))))))..)).))). ( -28.40)
>DroYak_CAF1 4863 104 - 1
AAUGUGCGGUAGAAACCAAGAUG-----CGGUUUG------AGUACUCACAAAGUAGCGAGGGCAAUGCCGCUCUUUGGAUCCCAAAUUUUGAUGGGCUGCUGGUUGUCCUUACU
..((((.((((.(((((......-----.))))).------..))))))))....((..((((((((((.((((.(..((........))..).)))).))..))))))))..)) ( -30.90)
>consensus
_AUGUGCGGUAGAAACCAUGAUG_GAAUUGUUCUAAAAAC_AAUACUCACAGAGUAGCCAGGGCAAUGCCGCUCUUGGGAUCCCAAAUCUUGAUGGGUUGCUGGUUGUCCUUGCU
..((((.((((................................))))))))....(((.((((((((((.(((((..((((.....))))..).)))).))..)))))))).))) (-22.09 = -22.32 +   0.23) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:17 2006