Locus 1465

Sequence ID 2R_DroMel_CAF1
Location 5,591,279 – 5,591,373
Length 94
Max. P 0.973691
window2496 window2497

overview

Window 6

Location 5,591,279 – 5,591,373
Length 94
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 97.16
Mean single sequence MFE -21.73
Consensus MFE -21.63
Energy contribution -22.30
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 1.00
SVM decision value 1.72
SVM RNA-class probability 0.973691
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5591279 94 + 20766785
UUUGAGCGUCGUACAAUCUCUUCAGUCGCAUUUUAUGUUUUUAAUGUUUUUUAGCACACUAAAAUCGUCAAAUGUGCUGAAUAGAUUUAGUUAA
..............(((((.(((((.(((((((.(((.(((((.(((........))).))))).))).)))))))))))).)))))....... ( -21.90)
>DroSec_CAF1 443 94 + 1
UUUGAGCGUCGUACAAUCUCUUCAGUCGCAUUUUAUGUUUUUAAUGUUAUUUAGCACACGAAAAUCGUAAAAUGUGCUCAAUAGAUUUAGUUAA
.(((((((.....).............((((((((((.((((..(((........)))..)))).))))))))))))))))............. ( -18.60)
>DroSim_CAF1 425 94 + 1
UUUGAGCGUCGUACAAUCUCUUCAGUCGCAUUUUAUGUUUUUAAUGUUAUUUAGCACACGAAAAUCGUAAAAUGUGCUGAAUAGAUUUAGUUAA
..............(((((.(((((.(((((((((((.((((..(((........)))..)))).)))))))))))))))).)))))....... ( -24.70)
>consensus
UUUGAGCGUCGUACAAUCUCUUCAGUCGCAUUUUAUGUUUUUAAUGUUAUUUAGCACACGAAAAUCGUAAAAUGUGCUGAAUAGAUUUAGUUAA
..............(((((.(((((.(((((((((((.((((..(((........)))..)))).)))))))))))))))).)))))....... (-21.63 = -22.30 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,591,279 – 5,591,373
Length 94
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 97.16
Mean single sequence MFE -19.60
Consensus MFE -17.40
Energy contribution -18.07
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.89
SVM decision value 1.00
SVM RNA-class probability 0.898789
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5591279 94 - 20766785
UUAACUAAAUCUAUUCAGCACAUUUGACGAUUUUAGUGUGCUAAAAAACAUUAAAAACAUAAAAUGCGACUGAAGAGAUUGUACGACGCUCAAA
.......(((((.((((((.(((((...(.(((((((((........))))))))).)...))))).).))))).))))).............. ( -21.20)
>DroSec_CAF1 443 94 - 1
UUAACUAAAUCUAUUGAGCACAUUUUACGAUUUUCGUGUGCUAAAUAACAUUAAAAACAUAAAAUGCGACUGAAGAGAUUGUACGACGCUCAAA
.............((((((.(((((((.(.((((.((((........)))).)))).).)))))))((((..........)).))..)))))). ( -17.30)
>DroSim_CAF1 425 94 - 1
UUAACUAAAUCUAUUCAGCACAUUUUACGAUUUUCGUGUGCUAAAUAACAUUAAAAACAUAAAAUGCGACUGAAGAGAUUGUACGACGCUCAAA
.......(((((.((((((.(((((((.(.((((.((((........)))).)))).).))))))).).))))).))))).............. ( -20.30)
>consensus
UUAACUAAAUCUAUUCAGCACAUUUUACGAUUUUCGUGUGCUAAAUAACAUUAAAAACAUAAAAUGCGACUGAAGAGAUUGUACGACGCUCAAA
.......(((((.((((((.(((((((.(.((((.((((........)))).)))).).))))))).).))))).))))).............. (-17.40 = -18.07 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:30 2006