Locus 5935

Sequence ID 2R_DroMel_CAF1
Location 18,720,207 – 18,720,309
Length 102
Max. P 0.513168
window9520

overview

Window 0

Location 18,720,207 – 18,720,309
Length 102
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 74.58
Mean single sequence MFE -24.03
Consensus MFE -7.65
Energy contribution -8.91
Covariance contribution 1.26
Combinations/Pair 1.26
Mean z-score -2.17
Structure conservation index 0.32
SVM decision value -0.04
SVM RNA-class probability 0.513168
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18720207 102 - 20766785
UAUAUUUAAUUUAGGCUUAAUGC-------CGGACA--GAGAUUGCAUUUUAGUAUGCACCCGCGCCGCCAUCUC-AAAUUCCUCACAAGUGUCAAAUUGGCCUUGAAUCAU
.............(((.....))-------)(((..--((((((((((......)))))...((...)).)))))-....)))...((((.(((.....)))))))...... ( -21.30)
>DroGri_CAF1 122838 98 - 1
UGUGUUUAAUUCAGCAUUAAUGAAACAUACACGUCACAGAGAUUUU---UUGUUCUUCAU---------UUACUU-GUUGUACACCAAAGUGCC-AAUUGUCGUUGAAUUAU
......(((((((((...(((((((((.....(((.....)))...---.)))..)))))---------).....-...((((......)))).-.......))))))))). ( -15.90)
>DroSec_CAF1 83502 92 - 1
UAUAUUUAAUUUAGGCUUAAUGC-------CGGACA--GAGAUUGCAUUUUAGUAUGCAC---------CAUCUC-AAACUCCUC-CAAGUGUCAAAUUGGCAUUGAGUCAU
.............((((((((((-------(((((.--((((((((((......))))).---------.)))))-..(((....-..))))))....)))))))))))).. ( -29.90)
>DroSim_CAF1 84033 93 - 1
UAUAUUUAAUUUAGGCUUAAUGC-------CGGACA--GAGAUUGCAUUUUAGUAUGCAC---------CAUCUC-AAACUCCCCGCAAGUGUCAAAUUGGCAUUGAGUCAU
.............((((((((((-------((((((--((((((((((......))))).---------.)))))-........(....)))))....)))))))))))).. ( -31.70)
>DroEre_CAF1 84488 102 - 1
UAUAUUUAAUUUAGGCUUAAUGC-------CGGACA--GAGAUUGCAUUUUAGUAUGCACCC-CGCCGUCGUCUCCCACCUACACACAAGUGUCAAAUUGGCAUUGAAUCAU
.............(..(((((((-------(((...--((((((((((......)))))...-.......)))))...)).((((....))))......))))))))..).. ( -24.40)
>DroYak_CAF1 84900 99 - 1
UAUAUUUAAUUUAGGCUUAAUGC-------CGGACA--GAGAUUGCAUUUUAGUGUGCACCCCCGCCGCCG----CCGCCUCCUCAAAAGUGUCAAAUUGGCAUUGAAUCAU
.............(..(((((((-------((((((--(((..(((((......))))).....((....)----)......))).....))))....)))))))))..).. ( -21.00)
>consensus
UAUAUUUAAUUUAGGCUUAAUGC_______CGGACA__GAGAUUGCAUUUUAGUAUGCAC_________CAUCUC_AAACUCCUCACAAGUGUCAAAUUGGCAUUGAAUCAU
.............((.(((((((.........((((..((((((((((......)))))...........)))))...............))))......))))))).)).. ( -7.65 =  -8.91 +   1.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:26 2006