Locus 5446

Sequence ID 2R_DroMel_CAF1
Location 17,517,856 – 17,517,946
Length 90
Max. P 0.598302
window8692

overview

Window 2

Location 17,517,856 – 17,517,946
Length 90
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 81.46
Mean single sequence MFE -21.27
Consensus MFE -13.86
Energy contribution -15.45
Covariance contribution 1.59
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.65
SVM decision value 0.13
SVM RNA-class probability 0.598302
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17517856 90 - 20766785
AAGGGGUGGGAAACUUUUACGCAUCGCAGCACAAAGUGACCCUGGCAAG----------GAAGUCUUUGCGCAAAGGACACCCAAAU-------AAAAAAUAAACGG
...((((((....)......((.((((........)))).....(((((----------(....))))))))......)))))....-------............. ( -23.40)
>DroVir_CAF1 41295 98 - 1
-------AAAAAACUUUUUCGCACCGCGGCACAAAGUGACCCUUG-AACCUUGGAACCUGAAAUCUUAAC-UACGGCCCACUUAAAUUAAGUUGAAAAACAAAACGA
-------.......((((((((......))...(((((..((...-......(((........)))....-...))..)))))..........))))))........ (  -9.99)
>DroSec_CAF1 24354 89 - 1
AA-GGGUGGGAAACUUUUACGCAUCGCAGCACAAAGUGACCCUGGCAAG----------GAAGUCUUUGCGCAAAGGACACCCGAAU-------AAAAAAUAAACGG
..-((((((....)......((.((((........)))).....(((((----------(....))))))))......)))))....-------............. ( -23.60)
>DroSim_CAF1 25619 89 - 1
AA-GGGUGGGAAACUUUUACGCAUCGCAGCACAAAGUGACCCUGGCAAG----------GAAGUCUUUGCGCAAAGGACACCCGAAU-------AAAAAAUAAACGG
..-((((((....)......((.((((........)))).....(((((----------(....))))))))......)))))....-------............. ( -23.60)
>DroEre_CAF1 31771 89 - 1
AA-GGGUGGGAAACUUUUACGCAUCGCAGCACAAAGUGACCCCGGCAAG----------GAAGUCUUUGCGCAAAGGACACCCAAAU-------AAAAAAUAAACGG
..-((((((....)......((.((((........)))).....(((((----------(....))))))))......)))))....-------............. ( -23.60)
>DroYak_CAF1 26130 88 - 1
-A-GGGUGGGAAACUUUUACGCAUCGCAGCACAAAGUGACCCUGGCAAG----------GAAGUCUUUGCGCAAAGGAUACCCAAAU-------AAAAAAAGAACGG
-.-(((((((..(((((...((......))..)))))..)))(((((((----------(....)))))).))......))))....-------............. ( -23.40)
>consensus
AA_GGGUGGGAAACUUUUACGCAUCGCAGCACAAAGUGACCCUGGCAAG__________GAAGUCUUUGCGCAAAGGACACCCAAAU_______AAAAAAUAAACGG
...(((((((..(((((...((......))..)))))..)))....................((((((.....))))))))))........................ (-13.86 = -15.45 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:07 2006