Locus 3372

Sequence ID X_DroMel_CAF1
Location 8,993,003 – 8,993,100
Length 97
Max. P 0.822948
window5524

overview

Window 4

Location 8,993,003 – 8,993,100
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 81.40
Mean single sequence MFE -12.79
Consensus MFE -7.58
Energy contribution -7.02
Covariance contribution -0.56
Combinations/Pair 1.19
Mean z-score -2.17
Structure conservation index 0.59
SVM decision value 0.69
SVM RNA-class probability 0.822948
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8993003 97 + 22224390
AAGAAAAGAAAAUAAUCACUACCUUCAUUUGUUUAUAAAACACCGAACAACAAUAGAAUUCAGAAAACAUAAAUCUGAAGAGCACGUGAAUAAACAU
...............((((.........((((((..........)))))).....(..((((((.........))))))...)..))))........ ( -10.50)
>DroSec_CAF1 4851 92 + 1
AGGAAAA--AACGUAUCA---CCUUCUUUUGUUUAUAAAACACCGAACAAGAAUAGAAUUCAGAAAACAUAAAUCUGAAGAGCACGUGAAUGAACAU
.......--.((((.((.---.((..((((((((..........))))))))..))..((((((.........))))))))..)))).......... ( -14.10)
>DroSim_CAF1 6542 95 + 1
AGGAAAA--AACGUAUCACUACCUUCUUUUGUUUAUAAAACACCGAACAACAAUAGAAUUCAGAAAACAUAAAUCUGAAGAGCACGUGAAUAAACAU
.......--.((((.((......((((.(((((...............))))).))))((((((.........))))))))..)))).......... ( -12.66)
>DroEre_CAF1 4895 83 + 1
-------------AAUUGACACCUACUUUUGUUUACAAAACACUAAA-AACAAUACAAUUCAGAGAACAUAAAUCUGAAGAGUACGUGAAUAAACAU
-------------......(((.(((((((((((............)-))))).....((((((.........))))))))))).)))......... ( -13.30)
>DroYak_CAF1 6448 83 + 1
-------------GAUCACAACCUUCUUUUGUUUACAAAACACUGAA-AACAAUCCAAUUCAGAAAACAUAAAUCUGAAGAGCAUGUGAAUAAACAU
-------------..(((((..(((...((((((.((......)).)-))))).....((((((.........)))))))))..)))))........ ( -13.40)
>consensus
A_GAAAA__AA__AAUCACUACCUUCUUUUGUUUAUAAAACACCGAACAACAAUAGAAUUCAGAAAACAUAAAUCUGAAGAGCACGUGAAUAAACAU
...........................(((((((((......................((((((.........))))))(....))))))))))... ( -7.58 =  -7.02 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:46 2006