Locus 3994

Sequence ID 2R_DroMel_CAF1
Location 13,212,516 – 13,212,620
Length 104
Max. P 0.523957
window6448

overview

Window 8

Location 13,212,516 – 13,212,620
Length 104
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 90.33
Mean single sequence MFE -33.48
Consensus MFE -24.74
Energy contribution -26.42
Covariance contribution 1.68
Combinations/Pair 1.07
Mean z-score -1.62
Structure conservation index 0.74
SVM decision value -0.02
SVM RNA-class probability 0.523957
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13212516 104 - 20766785
GGCGGGCUUUCCCUCCUGCCAUCUUACCAUAGCCAUAUGGCAAGCGUUCUAGGAACAUCGUGUGAUUU-UUGGGGGCCAGCAAGAAUUCCGCUUUAUCACUAGAC
((((((........))))))..(((.(((((....))))).)))...(((((((.....(((..((((-(((........)))))))..)))....)).))))). ( -29.70)
>DroSec_CAF1 6408 104 - 1
GGCGGGCUUGCCCUCCUGCCAUCUUACCAUAGCCAUAUGGCAAGCGUUCUAGGAACAUCGUGUGAUUU-UUGGGGGCCAGCAAGAAUUCCGCCUUAUCACUAGAC
((((((((((((((((....(((.(((....(((....)))....((((...))))...))).)))..-..)))))...)))))...))))))............ ( -33.30)
>DroSim_CAF1 7715 104 - 1
GGCGGGCUUGCCCUCCUGCCAUCUUACCAUAGCCAUAUGGCAAGCGUUCUAGGAACAUCGUGUGAUUU-UUGGGGGCCAGCAAGAAUUCCGCCUUAUCACUAGAC
((((((((((((((((....(((.(((....(((....)))....((((...))))...))).)))..-..)))))...)))))...))))))............ ( -33.30)
>DroEre_CAF1 6189 98 - 1
GGCGGGGCUGCCGUCCUGCCAUCUUACUAAAGCCAUAUGGCAAACGUUC-------AUCGUGUGAUUUUUUGGGGGCCAGCAAGAAUUCCCCCUUAUCACCAGAC
((((((((....))))))))...........(((....)))..(((...-------..)))(((((.....(((((............)))))..)))))..... ( -33.40)
>DroYak_CAF1 6418 104 - 1
GGCGGGAUUGCCCCCCAGCCAUCUUACCAUAGCCAUAUGGCAAACGUUCUGAGAACAUCGUGUGAUUU-UUGGGGGCCAGCAAGAAUUCCGCCUUAUCAGCAAAC
((((((((((((((((((..(((.(((....(((....)))....((((...))))...))).)))..-)))))))...)))...))))))))............ ( -37.70)
>consensus
GGCGGGCUUGCCCUCCUGCCAUCUUACCAUAGCCAUAUGGCAAGCGUUCUAGGAACAUCGUGUGAUUU_UUGGGGGCCAGCAAGAAUUCCGCCUUAUCACUAGAC
((((((((((((((((....(((.(((....(((....)))....((((...))))...))).))).....)))))...)))))...))))))............ (-24.74 = -26.42 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:13 2006