Locus 878

Sequence ID 2R_DroMel_CAF1
Location 4,031,899 – 4,032,011
Length 112
Max. P 0.662073
window1526

overview

Window 6

Location 4,031,899 – 4,032,011
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.56
Mean single sequence MFE -14.80
Consensus MFE -10.49
Energy contribution -10.49
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.71
SVM decision value 0.27
SVM RNA-class probability 0.662073
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4031899 112 + 20766785
UUCUGAGAUUCUCAUUUGGAUUUAACACUC----GUUUCAGACGCUUAACCUUAUCUCGCCCUUUGUAAAUAUUAUUUUACAUUUAUAUUUCAUUUCACACUUUUUU--CUG--GAUUAA
.....((((((......)))))).......----..((((((.((.............))....((((((......))))))........................)--)))--)).... ( -10.82)
>DroSec_CAF1 14583 112 + 1
UUCUGAGAUUCUCAUUUGGAUUUCACACUCGUUCGUUUCAGACACUUAC--------UACCCUUUGUAAAUAUUAUUUUACAUUUAAAUUUCAUUCACCACUUUUUUGUCUGGAGAUUAA
...((((((((......))))))))..........(((((((((.....--------.......((((((......))))))...(((..............))).)))))))))..... ( -16.64)
>DroSim_CAF1 16700 112 + 1
UUCUGAGAUUCACAUUUGGAUUUCACACUCGUUCGUUUCAGACACUUAC--------UACCCUUUGUAAAUAUUAUUUUACAUUUAAAUUUCAUUCACCACUUUUUUGUCUGGAGAUUAA
...(((((((((....)))))))))..........(((((((((.....--------.......((((((......))))))...(((..............))).)))))))))..... ( -16.74)
>DroYak_CAF1 17851 108 + 1
UUCUGAGAUUCUUAAUUGGAUUUCACACCUGUACGUUUCAGAAUCUGAC--------UACCCUUUGUAAAUACUAUUUUACAUUUAUAUUUCAUUUCACACUUUUUUGU--A--UAUUAA
...((((((((......))))))))....(((((((.((((...)))).--------.))....((((((......)))))).........................))--)--)).... ( -15.00)
>consensus
UUCUGAGAUUCUCAUUUGGAUUUCACACUCGUUCGUUUCAGACACUUAC________UACCCUUUGUAAAUAUUAUUUUACAUUUAAAUUUCAUUCAACACUUUUUUGUCUG__GAUUAA
.((((((((.......((.......)).......))))))))......................((((((......))))))...................................... (-10.49 = -10.49 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:45 2006