Locus 4896

Sequence ID 2R_DroMel_CAF1
Location 16,004,038 – 16,004,130
Length 92
Max. P 0.586437
window7847

overview

Window 7

Location 16,004,038 – 16,004,130
Length 92
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 81.51
Mean single sequence MFE -21.41
Consensus MFE -11.85
Energy contribution -12.02
Covariance contribution 0.17
Combinations/Pair 1.27
Mean z-score -2.18
Structure conservation index 0.55
SVM decision value 0.11
SVM RNA-class probability 0.586437
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16004038 92 + 20766785
UGCGCCACC---GCUUUUAUGGCAGUCAA-AAAGUUGAACAA-AAUAAA------U---GAACUUUAAAUGUCUUUAUGGAAAAGACAACG--AAAGCGCGGGCAUAA
...(((..(---((((((...........-((((((.(....-......------)---.))))))...(((((((.....)))))))..)--))))))..))).... ( -24.00)
>DroVir_CAF1 138711 104 + 1
UAUGC--UCGACUUUUUUAUGGCAACCGAAAAAGUUAAAAAU-ACCGAAAAACGACCAUAAACUUAAAAUGUCUUUAUGAAGCCAACAACAAUGAAGCAAGCGCAUA-
(((((--.((((((((((..(....).)))))))))......-..........................((.((((((.............)))))))).).)))))- ( -15.32)
>DroSec_CAF1 59547 90 + 1
UGCGC--CC---GCUUUUAUGGCAGUCAA-AAAGUUGAACAA-AAUAAA------U---GAACUUUAAAUGUCUUUAUGGAAAAGACAACG--AACGCGCGGGCAUAA
...((--((---((.(((((.....((((-....))))....-.)))))------.---..........(((((((.....)))))))...--.....)))))).... ( -23.70)
>DroSim_CAF1 60299 90 + 1
UGCGC--CC---GCUUUUAUGGCAGUCAA-AAAGUUGAACAA-AAUAAA------U---GAACUUUAAAUGUCUUUAUGGAAAAGACAACG--AACGCGCGGGCAUAA
...((--((---((.(((((.....((((-....))))....-.)))))------.---..........(((((((.....)))))))...--.....)))))).... ( -23.70)
>DroEre_CAF1 65621 90 + 1
UGCGC--UC---GCUUUUAUGGCAGUCGA-AAAGUUGAACAA-AAUAAA------U---GAACUUUAAAUGUCUUUAUGGAAAGGACAACG--AACGCGCGGGCAUGA
...((--((---((.......((..(((.-((((((.(....-......------)---.))))))...(((((((.....))))))).))--)..)))))))).... ( -21.81)
>DroYak_CAF1 68404 92 + 1
UGCGC--UC---GCUUUUAUGGCAGUCGA-AAAGUUGAACAAAAAUAAA------U---GAACUUUAAAUGUCUUUAUGGGAAAGACAACA-AAACGCGCGGGCAUAA
...((--((---((.(((((.....((((-....))))......)))))------.---..........(((((((.....)))))))...-......)))))).... ( -19.90)
>consensus
UGCGC__CC___GCUUUUAUGGCAGUCAA_AAAGUUGAACAA_AAUAAA______U___GAACUUUAAAUGUCUUUAUGGAAAAGACAACG__AACGCGCGGGCAUAA
(((((.......(((.....)))..............................................(((((((.....)))))))........)))))....... (-11.85 = -12.02 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:40 2006