Locus 9606

Sequence ID 3R_DroMel_CAF1
Location 25,368,694 – 25,368,784
Length 90
Max. P 0.622706
window15356

overview

Window 6

Location 25,368,694 – 25,368,784
Length 90
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 77.23
Mean single sequence MFE -21.53
Consensus MFE -6.89
Energy contribution -7.19
Covariance contribution 0.31
Combinations/Pair 1.29
Mean z-score -2.57
Structure conservation index 0.32
SVM decision value 0.18
SVM RNA-class probability 0.622706
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25368694 90 + 27905053
AAUAAACAUUUGAAGCAAUUUACAAUUCGCCGUGCUCUUCC-UCGAGCGGAAGCAGCUGAAA-----AGUUAAGAGGAAAUAGC-AAUAGUUUAUUA
(((((((...((((....))))..........((((.((((-((..((....))((((....-----))))..))))))..)))-)...))))))). ( -25.90)
>DroSec_CAF1 53344 90 + 1
AAUAAACAUUUAUAGCAAUUUACAAUUCGCGGCGCUCUUCC-UCGAGCGGAAGCAGCUGAAA-----AGUUAAGAGGAAAUAGC-UAUAGUUUAUUA
(((((((...((((((............((...))..((((-((..((....))((((....-----))))..))))))...))-))))))))))). ( -26.20)
>DroSim_CAF1 53567 90 + 1
AAUAAACAUUUAUAGCAAUUUACAAUUCGCGGCGCUCUUCC-UCGAGCGGAAGCAGCUGAAA-----AGUUAAGAGGAAAUAGC-AAUAGUUUAUUA
(((((((.......(((((.....))).))...(((.((((-((..((....))((((....-----))))..))))))..)))-....))))))). ( -25.20)
>DroEre_CAF1 57115 94 + 1
AAUAAACAUUUAUAGCAAUCUACAAUUGGCCGCGCUCUUCU-UCGAGCGGAAGCAGCUGAAAAC-UAAGUUAAGAGGAAAUAGC-ACUAGUUUAUUA
(((((((.......((..((.......))..))(((.((((-((..((....))((((......-..))))..))))))..)))-....))))))). ( -21.50)
>DroMoj_CAF1 62038 92 + 1
AAUAAACAUUUA-AGAAAUUUACAAUUCGACUCGCUU---A-GCAAACGGAAACAGCUGCAUUUGGCAGCGAAUACUAAACGCCUAACAAUUUAUUA
((((((......-.(((........)))....((.((---(-(.....(....).(((((.....))))).....)))).))........)))))). ( -13.80)
>DroAna_CAF1 59999 88 + 1
AAUAAACAUUUGUUAAAGUUAACAAUUUGAUGUGCUCUUCUAUCAAGCGGAAGCAGCUGCAA-----AAGUAA--GGAAACAUU-UAC-UUUCAUUA
......((.((((((....))))))..)).(((((((((((.......))))).))).)))(-----((((((--(....)..)-)))-)))..... ( -16.60)
>consensus
AAUAAACAUUUAUAGCAAUUUACAAUUCGCCGCGCUCUUCC_UCGAGCGGAAGCAGCUGAAA_____AGUUAAGAGGAAAUAGC_AAUAGUUUAUUA
(((((((.......((...............))((((((((.......))))).)))................................))))))). ( -6.89 =  -7.19 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:08 2006