Locus 3980

Sequence ID 3R_DroMel_CAF1
Location 10,800,321 – 10,800,417
Length 96
Max. P 0.505436
window6382

overview

Window 2

Location 10,800,321 – 10,800,417
Length 96
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 86.83
Mean single sequence MFE -19.80
Consensus MFE -13.80
Energy contribution -15.48
Covariance contribution 1.68
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.70
SVM decision value -0.06
SVM RNA-class probability 0.505436
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10800321 96 + 27905053
-----AAAAGCACAGAAAUGAAUACUUAAAAGAGAGAAAGAGAAGGAGAAAUUGCAAGAGAAUUGAAGAAAGCCGCACUUGCAACCAUUUGCCUUUAAGCG
-----....((.((....)).....................(((((..((.(((((((.(..((.....))....).)))))))...))..)))))..)). ( -15.30)
>DroSec_CAF1 69986 101 + 1
GAUGAAAUAGCACAGAAAGAAAUACUUGAAAGAGAAAAAGAGGGGGAGAAAUUGCAAGAGAAUUGGAGAAAGCCGCACUUGCAACCAUUUGCCUUUAAGCG
.........((.............(((....)))....(((((.(((....(((((((.(....((......)).).)))))))...))).)))))..)). ( -20.50)
>DroSim_CAF1 74241 96 + 1
GAUGAAAUAGCACAGAAAGGAAUACUUGAAAGAGAA-AAGAGGGGGAGAAAUUGCAAGAGA-UUGGAGA-AGCCGCUCUUGCA-CCAUUUGC-UUUAAGCG
.........((.............(((....)))..-..((((.(((.....((((((((.-..((...-..)).))))))))-...))).)-)))..)). ( -21.00)
>DroEre_CAF1 72174 101 + 1
AAUGAAAAAGCACAAAAAGGAAUACUUAGAAAAGUGAUAGAGGGGGAGAAAUUGCAAGAGAAUCGGAGAAAGCCGCACUUGCAACCAUUUGCCUUUAAGCG
.........((...........(((((....))))).((((((.(((....(((((((.(...(((......)))).)))))))...))).)))))).)). ( -22.80)
>DroYak_CAF1 73978 101 + 1
AAUGAAAUAGCGCAAAAUGAAAUACUUGAAAGAGAGAAAGAGGGGGAGAAAUUGCAAGAGAUUCGUAGAAAGCCGCACUUGCAGCCAUUUGCCUUUAAGCG
..........(((...........(((....)))....(((((.(((....(((((((.(....((.....))..).)))))))...))).)))))..))) ( -19.40)
>consensus
AAUGAAAUAGCACAGAAAGGAAUACUUGAAAGAGAGAAAGAGGGGGAGAAAUUGCAAGAGAAUUGGAGAAAGCCGCACUUGCAACCAUUUGCCUUUAAGCG
.........((.............(((....)))....(((((.(((....(((((((.(...(((......)))).)))))))...))).)))))..)). (-13.80 = -15.48 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:05 2006