Locus 4035

Sequence ID 3R_DroMel_CAF1
Location 11,025,652 – 11,025,753
Length 101
Max. P 0.805491
window6463

overview

Window 3

Location 11,025,652 – 11,025,753
Length 101
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 76.89
Mean single sequence MFE -13.15
Consensus MFE -9.63
Energy contribution -9.69
Covariance contribution 0.06
Combinations/Pair 1.22
Mean z-score -1.22
Structure conservation index 0.73
SVM decision value 0.63
SVM RNA-class probability 0.805491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11025652 101 + 27905053
CAAAAAAAAAAGAAAAACAAAACAAAUUAU-UGAUUCCACGCCAAAGCAAUCACUUCAUAUGCCACGCUUUGGUUUU-CACUCUUACCUUAUAUUAAAAAAUU
...........((((.......(((....)-)).......((((((((..................)))))))))))-)........................ ( -10.77)
>DroSec_CAF1 965 86 + 1
CAAAAA-------UAAACCAAACAACUAAU-UGAUGCCCCGCCAAAGCGAUCACUUCAUAUGCCACGCUUUGAUUUU-UACUCUUACUUGA--------GAUU
.(((((-------(........(((....)-)).........(((((((................))))))))))))-).(((......))--------)... ( -10.29)
>DroSim_CAF1 1109 87 + 1
CAAAAAA------AAAACCAAACAACUAAU-UGAUGCCCCGCCAAAGCGAUCACUUCAUAUGCCACGCUUUGGUUUU-CACUCUUACUUGA--------GAUU
.......------.................-.........(((((((((................)))))))))...-..(((......))--------)... ( -14.29)
>DroEre_CAF1 3806 84 + 1
CACAAAA--------AAC-CAACAACUAAU-UGAUGCUCCGCUAAAGCGAUCACUUCACAUGCCACGCUUUGGUUUU-CAGUCUUACUUGA--------GAUU
.......--------...-...(((.(((.-.(((.....(((((((((................)))))))))...-..)))))).))).--------.... ( -12.19)
>DroYak_CAF1 1122 84 + 1
CACAAAA--------GAC-CAACAACUAAU-UGAUGCCCCGCCAAAGCGAUCACUUCAUAUGCUACGCUUUGGUUUU-CAGUCUUACCUGA--------GAUU
.......--------...-...........-.........(((((((((................)))))))))(((-(((......))))--------)).. ( -15.99)
>DroAna_CAF1 1051 81 + 1
-----AA--------AAU-UUCCAAUUAAUAUGAUGUAUGGCCAGAGCGAUCACUUCACAUGGCACGCUUUGGUUUUCCAGUUCUACUUGA--------AGUG
-----..--------...-....................((((((((((.(((.......)))..))))))))))...((.(((.....))--------).)) ( -15.40)
>consensus
CAAAAAA________AAC_AAACAACUAAU_UGAUGCCCCGCCAAAGCGAUCACUUCAUAUGCCACGCUUUGGUUUU_CACUCUUACUUGA________GAUU
........................................(((((((((................)))))))))............................. ( -9.63 =  -9.69 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:23 2006