Locus 4460

Sequence ID 2L_DroMel_CAF1
Location 12,804,183 – 12,804,281
Length 98
Max. P 0.602441
window7012

overview

Window 2

Location 12,804,183 – 12,804,281
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.59
Mean single sequence MFE -27.73
Consensus MFE -17.53
Energy contribution -18.37
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.59
Structure conservation index 0.63
SVM decision value 0.14
SVM RNA-class probability 0.602441
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12804183 98 - 22407834
AGCCCGA------C--------CUCCCCGGCGCACCCCUCCAGC--------GGAGCGCUAAGUGCAGGCUCGUUUGAAAUAAAUAUGCCGCAAAAGCAAACAAACAAUCCGGAGGAGCA
.......------.--------((((((((.((.((.(....).--------)).))(((...(((.(((..(((((...)))))..))))))..)))...........)))).)))).. ( -29.30)
>DroPse_CAF1 98617 112 - 1
AGUCCACAGGACCCUC------CCCCUCCGC--UCCCCGCCAGAGCCCUGCUGAAGCGCUAAGUGCAGGCUCGUUUGAAAUAAAUAUGCCGCCAAAGCAAACAAACAAUCGAAAGGACGA
.((((...(((.....------....)))((--((.......))))..((((...((((.....)).(((..(((((...)))))..)))))...))))...............)))).. ( -26.60)
>DroSec_CAF1 69863 95 - 1
AGCCCGA------C--------CUCCCCGGC--GACCCUCCAGC--------GGAGCGCUAAGUGCAGGCUCGUUUGAAAUAAAUAUGCCGCAA-AGCAAACAAACAAUCCGGAGGAGCA
.......------.--------((((((((.--....((((...--------)))).(((...(((.(((..(((((...)))))..)))))).-)))...........)))).)))).. ( -27.80)
>DroSim_CAF1 72039 96 - 1
AGCCCGA------C--------CUCCCCGGC--ACCCCUCCAGC--------GGAGCGCUAAGUGCAGGCUCGUUUGAAAUAAAUAUGCCGCAAAAGCAAACAAACAAUCCGGAGGAGCA
.......------.--------((((((((.--....((((...--------)))).(((...(((.(((..(((((...)))))..))))))..)))...........)))).)))).. ( -28.20)
>DroEre_CAF1 72203 86 - 1
AGCCCAA--------------------------CCCCCUCCAGC--------GCAGCGCUAAGUGCAGGCUCGUUUGAAAUAAAUAUGCCGCAAAAGCAAACAAACAAUCCGGAGGAGCA
.......--------------------------...(((((.((--------...))(((...(((.(((..(((((...)))))..))))))..))).............))))).... ( -22.00)
>DroYak_CAF1 73047 110 - 1
AACCCCAAGCACCCCCCCUCGGCUCCACGGC--UCCCCUCCAGC--------GGAGCGCUAAGUGCAGGCUCGUUUGAAAUAAAUAUGCCGCAAAAGCAAACAAACAAUCCGGAGGAGCA
.....................(((((.((((--(((.(....).--------)))))(((...(((.(((..(((((...)))))..))))))..)))............))..))))). ( -32.50)
>consensus
AGCCCGA______C________CUCCCCGGC__ACCCCUCCAGC________GGAGCGCUAAGUGCAGGCUCGUUUGAAAUAAAUAUGCCGCAAAAGCAAACAAACAAUCCGGAGGAGCA
....................................(((((.((...........))(((...(((.(((..(((((...)))))..))))))..))).............))))).... (-17.53 = -18.37 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:15 2006