Locus 8667

Sequence ID 3R_DroMel_CAF1
Location 23,156,091 – 23,156,208
Length 117
Max. P 0.512139
window13918

overview

Window 8

Location 23,156,091 – 23,156,208
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.51
Mean single sequence MFE -35.50
Consensus MFE -28.52
Energy contribution -28.89
Covariance contribution 0.37
Combinations/Pair 1.06
Mean z-score -1.75
Structure conservation index 0.80
SVM decision value -0.04
SVM RNA-class probability 0.512139
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23156091 117 + 27905053
AUCCGCCUGGACAAUUGAAUCGAAGUUGCCGAAAACCUGGCGAAUAUUGCGGUUAACAUACUCCAAGUACUUUAGCGACGAGUUGCACAAGCUGCACUUG---UUGUUCUUGUCGUUAUC
....((.((((......(((((((.((((((......))))))...)).))))).......)))).))....((((((((((..(((((((.....))))---.))).)))))))))).. ( -33.92)
>DroSec_CAF1 6739 117 + 1
AUCCGCCUGGACAAUUGAAUCGAAGUUGCCGAAAACCUGGCGAAUAUUGCGGUUGACAUACUCCAAGUACUUCAGCGACGAGUUGCACAAGUUGCACUUG---UUGUUCUUGUCGUUAUC
....((.((((....(.(((((((.((((((......))))))...)).))))).).....)))).)).....(((((((((..(((((((.....))))---.))).)))))))))... ( -33.30)
>DroSim_CAF1 11290 117 + 1
AUCCGCCUGGACAAUUGAAUCGAAGUUGCCGAAAACCUGGCGAAUAUUGCGGUUGACAUACUCCAAGUACUUCAGCGACGAGUUGCACAAGUUGCACUUG---UUGUUCUUGUCGUUAUC
....((.((((....(.(((((((.((((((......))))))...)).))))).).....)))).)).....(((((((((..(((((((.....))))---.))).)))))))))... ( -33.30)
>DroYak_CAF1 11301 120 + 1
AUCCGCCUGGACAAUUGCAUCGAAGUUGCCGAAUACCUGGCGAAUAUUGCGAUUGACAUACUCCAAAUACUUGAGCGACGAGUUGCACAAGCUGCACUUGGCUUGGCUCUUGUCGUUAUC
.......((((((((((((......((((((......))))))....))))))))......))))........(((((((((..((.((((((......)))))))).)))))))))... ( -41.50)
>consensus
AUCCGCCUGGACAAUUGAAUCGAAGUUGCCGAAAACCUGGCGAAUAUUGCGGUUGACAUACUCCAAGUACUUCAGCGACGAGUUGCACAAGCUGCACUUG___UUGUUCUUGUCGUUAUC
....((.((((......(((((((.((((((......))))))...)).))))).......)))).)).....(((((((((..(((((((.....))))....))).)))))))))... (-28.52 = -28.89 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:44 2006