Locus 1927

Sequence ID X_DroMel_CAF1
Location 5,302,692 – 5,302,808
Length 116
Max. P 0.822570
window3131

overview

Window 1

Location 5,302,692 – 5,302,808
Length 116
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 76.70
Mean single sequence MFE -24.20
Consensus MFE -13.81
Energy contribution -13.62
Covariance contribution -0.19
Combinations/Pair 1.12
Mean z-score -2.05
Structure conservation index 0.57
SVM decision value 0.69
SVM RNA-class probability 0.822570
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5302692 116 + 22224390
GUGCUGUUGAGGAGACGAGAAAAGCUUUAAGGCGACUUAAAAGAUGUCUUGAUGAACUGCUAGCUGAAUUAAAUUGUUAUUUAAUUUCUAGAAAUGUUGGUUUUUUUU-UUUUGUUA
.......(((.((((.((((((((((((((((((.((....)).))))))))..(((..((((..(((((((((....)))))))))))))....)))))))))))))-)))).))) ( -23.70)
>DroSec_CAF1 39469 102 + 1
--GCUGUUGAGGAAACGAGAAAAGCUUUAAGGCGACUUAAAAGAUGUCUCGAUGAACUGCUAG--AAAUU--AUUUUUAUUUAAUUUCUAGAAAUGCAGAUUUUCUUU---------
--......((((((((((((.....((((((....)))))).....))))).....(((((((--(((((--(........))))))))).....)))).))))))).--------- ( -27.10)
>DroSim_CAF1 30291 88 + 1
--GCUGUUGAGGAAACGAGAAAAGCUUUAAGGCGACUUAAAAGAUGUCUCGAUGAACUGCUAG--AAAUU--AUUUAUAUUUAAUUUCUAGAAA-----------------------
--((.(((.((....)((((.....((((((....)))))).....))))..).))).))(((--(((((--(........)))))))))....----------------------- ( -22.70)
>DroYak_CAF1 41380 100 + 1
CUGCUGUUGGGGAAACGAGAAAAGCUUUAAGGCGACUUAAAAGCUGGCUUGAUGAACUGCUAG---------AUUUUUAUUUAAUUUUUAGUAAUGCAGUUGCUCGCAU--------
((((...........((((...(((((((((....))).))))))..))))......((((((---------(..((.....))..)))))))..))))..........-------- ( -23.30)
>consensus
__GCUGUUGAGGAAACGAGAAAAGCUUUAAGGCGACUUAAAAGAUGUCUCGAUGAACUGCUAG__AAAUU__AUUUUUAUUUAAUUUCUAGAAAUGCAG_UUUUCUUU_________
..((.(((.((....)((((.....((((((....)))))).....))))..).))).))......................................................... (-13.81 = -13.62 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:01 2006