Locus 4519

Sequence ID 3R_DroMel_CAF1
Location 12,002,873 – 12,002,966
Length 93
Max. P 0.890891
window7379

overview

Window 9

Location 12,002,873 – 12,002,966
Length 93
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 92.43
Mean single sequence MFE -24.88
Consensus MFE -20.38
Energy contribution -20.62
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.21
Structure conservation index 0.82
SVM decision value 0.96
SVM RNA-class probability 0.890891
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12002873 93 + 27905053
CAAAAUGUUUUCCAGCCGCCUGAUCUG--CGAUUCGAUUUAUGGCUUCACAAGCACUCAAUCAUUGCGUUCAAGCUUUGAUUGGCUGCUUCGAAA
........((((.(((((...((((..--......))))..)))))....(((((..((((((..((......))..))))))..))))).)))) ( -25.10)
>DroSec_CAF1 108262 92 + 1
CAAAAUCUUUUCCAG---CCUGAUCUGCGCGAUUCGAUUUAUGGCUCCGCAAGCACUCAAUCAUCGCGUUCAAGCUUUGAUUGGCUGCUUCGAAA
.............((---((.((((..........))))...)))).((.(((((..((((((..((......))..))))))..)))))))... ( -25.00)
>DroSim_CAF1 108535 95 + 1
CAAAAUGUUUUCCAGCCGCCUGAUCUGCGCGAUUCGAUUUAUGGCUCCGCAAGCACUCAAUCAUCGCGUUCAAGCUUUGAUUGGCUGCUUCGAAA
.............(((((...((((..........))))..))))).((.(((((..((((((..((......))..))))))..)))))))... ( -25.40)
>DroYak_CAF1 111151 93 + 1
CAAAAUGUUUUCCAGCCGCCCGAUCUG--CGAUUCGAUUUAUGGCUCCACAAGCACUCAAUCAUUGCUUUCAAGCUUUGAUUGGCUGCUUUUAAA
.............(((((...((((..--......))))..)))))....(((((..((((((..(((....)))..))))))..)))))..... ( -24.00)
>consensus
CAAAAUGUUUUCCAGCCGCCUGAUCUG__CGAUUCGAUUUAUGGCUCCACAAGCACUCAAUCAUCGCGUUCAAGCUUUGAUUGGCUGCUUCGAAA
.................(((.((((..........))))...))).....(((((..((((((..((......))..))))))..)))))..... (-20.38 = -20.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:16 2006