Locus 439

Sequence ID 2R_DroMel_CAF1
Location 2,526,257 – 2,526,350
Length 93
Max. P 0.814774
window845

overview

Window 5

Location 2,526,257 – 2,526,350
Length 93
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 80.69
Mean single sequence MFE -25.12
Consensus MFE -10.84
Energy contribution -12.07
Covariance contribution 1.22
Combinations/Pair 1.06
Mean z-score -3.07
Structure conservation index 0.43
SVM decision value 0.66
SVM RNA-class probability 0.814774
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2526257 93 + 20766785
GCGGGGACGAAAAU------AAAAACUUGUUGCUCUAUAGAAAGAAGAGUGAUAAAACAAAGGUAACAGCAAU-CAACUGGU---UGGCAGAGCCGAAGUUU-G
.((....)).....------..((((((((..((((.........))))..))........(((.....((((-(....)))---)).....))).))))))-. ( -20.00)
>DroSec_CAF1 2424 93 + 1
GCGGGGACCUACAU------AAAAACUUGUUGCUCUAGAGAAAGAAGAGCGAUAAAACAAAGGCAACAGCAAU-CAACUGGU---UGGCAGAGCCGAAGUUU-G
..(....)......------..((((((((((((((.........))))))))........(((.....((((-(....)))---)).....))).))))))-. ( -21.20)
>DroSim_CAF1 1441 93 + 1
GCGGGGACGCACAU------AAAAACUUGUUGCUCUAGAGAAAGAAGAGCGAUAAAACAAAGGCAACAGCAAU-CAACUGGU---UGGCAGAGCCGAAGUUU-G
(((....)))....------..((((((((((((((.........))))))))........(((.....((((-(....)))---)).....))).))))))-. ( -27.60)
>DroEre_CAF1 1507 95 + 1
GCGGGGACGAAAAUAAAAAUAAAAACUUGUUGCUCUAGAG----AAGAGCGAUAAAACAAAGGCAACACCAAU-CAACUGGU---UGGCAGAGCCGAAGCUU-G
.((....)).................((((((((((....----.))))))))))......(((....(((((-(....)))---)))....))).......-. ( -26.50)
>DroYak_CAF1 1192 90 + 1
GCGGCGACGAAAAU------AAAAACUUGUUGCUCUAGAG----AAGAGCGAUAAAACAAAGGCAACACCAAUUUAACUGGU---UGCCAGAGCCGAAGUUU-G
.((((.........------......((((((((((....----.))))))))))......((((..((((.......))))---))))...))))......-. ( -28.10)
>DroAna_CAF1 803 96 + 1
GAAGGAGAGAAAACA-----AAAAACCUGUUGCUCUGUUCAGAUAAAA--CAAAAGAAAAAGGCAACAACAAA-CACCUGGUUGUUGUCAGAGCAGCAGUUUUA
...............-----.(((((.((((((((((((.......))--)..........(((((((((...-......))))))))))))))))))))))). ( -27.30)
>consensus
GCGGGGACGAAAAU______AAAAACUUGUUGCUCUAGAGAAAGAAGAGCGAUAAAACAAAGGCAACAGCAAU_CAACUGGU___UGGCAGAGCCGAAGUUU_G
.(((......................((((((((((.........))))))))))......(....)..........(((........)))..)))........ (-10.84 = -12.07 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:36 2006