Locus 1636

Sequence ID X_DroMel_CAF1
Location 4,655,113 – 4,655,233
Length 120
Max. P 0.558836
window2686

overview

Window 6

Location 4,655,113 – 4,655,233
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.91
Mean single sequence MFE -24.84
Consensus MFE -21.50
Energy contribution -22.25
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.87
SVM decision value 0.05
SVM RNA-class probability 0.558836
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4655113 120 + 22224390
CCAUCCCUUCAUUCCCCUAUUCACCCACCUAUUCCACCCAUUUCCAAUCCGGGUGAUCCAGCUCUCCGGCCGUAUUCGUACGUGAGCUCGUAUAUUUUACGUGCCCCGGUCUCCGGACUC
....................((((((........................))))))...........(((((((...(((((......)))))....)))).)))((((...)))).... ( -25.56)
>DroSec_CAF1 16791 100 + 1
CCAUUCCCCUAU--------------------UCCGCCCGUUUCCAAUCCGGGUGAUCCAGCUCUCCGGCCGUAUUCGUACGUGAGCUCGUAUAUUUUACGUGCCCCGGUCUCCGGACUC
............--------------------..((((((.........))))))............(((((((...(((((......)))))....)))).)))((((...)))).... ( -26.80)
>DroEre_CAF1 17397 102 + 1
CCAACCCC-CACCUC-----------------CCCCUCCGUUCACAAUCCGCUUGAUCCAGCUCUCCGGCCGUAUUCGUACGUGAGCUCGUAUAUUUUACGUGCCCCGGUCUCCGGACUC
........-......-----------------....((((..........(((......))).....(((((.....(((((((((.........)))))))))..)))))..))))... ( -20.70)
>DroYak_CAF1 13005 103 + 1
CCAUCCCCGCAAUAC-----------------CCCAUCCAUUCCCAAUCCGGGUGAUCCAGCUCUCCGGCCGUAUUCGUACGUGAGCUCGUAUAUUUUACGUGCCCCGGUGUCCGGACUC
......(((..((((-----------------(.(((((...........)))))............(((((((...(((((......)))))....)))).)))..))))).))).... ( -26.30)
>consensus
CCAUCCCC_CAUU_C_________________CCCACCCAUUCCCAAUCCGGGUGAUCCAGCUCUCCGGCCGUAUUCGUACGUGAGCUCGUAUAUUUUACGUGCCCCGGUCUCCGGACUC
...............................................((((((.((((.(((((..((..((....))..)).)))))((((.....))))......))))))))))... (-21.50 = -22.25 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:22 2006