Locus 108

Sequence ID 3R_DroMel_CAF1
Location 649,789 – 649,879
Length 90
Max. P 0.983319
window179 window180

overview

Window 9

Location 649,789 – 649,879
Length 90
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 81.29
Mean single sequence MFE -19.76
Consensus MFE -13.80
Energy contribution -14.47
Covariance contribution 0.67
Combinations/Pair 1.13
Mean z-score -2.78
Structure conservation index 0.70
SVM decision value 1.94
SVM RNA-class probability 0.983319
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 649789 90 + 27905053
UGAAGUCCGCCGAUGCGAUUCCACACUACAUAUGUACAUACAUA----CAUAAGCCUCAUGGCGAAAGCCACCAAGUCAGACGUAUCAUAAAAU
...........((((((.............((((((......))----)))).......((((....))))..........))))))....... ( -20.40)
>DroSec_CAF1 70404 88 + 1
UUAAGUCAGCCGAUGCUAUUCCACACUACAUAUGCACAUACAUAUGUAU--GUGCCGCAUGGCGAAAGCCACCAACC----UUUAAGAUACAAU
....(((.....((((.....((((.((((((((......)))))))))--)))..))))(((....))).......----.....)))..... ( -23.70)
>DroSim_CAF1 67371 90 + 1
UUAAGUCAGCCGAUGCUAUUCCACACUACAUAUGCACAUAUAUAUGUACAUAAGCCGCAUGGCGAAAGCCACCAACC----UUUAACAUACAAU
............((((..........((((((((......))))))))........))))(((....))).......----............. ( -15.17)
>consensus
UUAAGUCAGCCGAUGCUAUUCCACACUACAUAUGCACAUACAUAUGUACAUAAGCCGCAUGGCGAAAGCCACCAACC____UUUAACAUACAAU
.......(((....))).........((((((((......))))))))...........((((....))))....................... (-13.80 = -14.47 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 649,789 – 649,879
Length 90
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 81.29
Mean single sequence MFE -27.90
Consensus MFE -16.53
Energy contribution -20.53
Covariance contribution 4.00
Combinations/Pair 1.00
Mean z-score -2.67
Structure conservation index 0.59
SVM decision value 0.90
SVM RNA-class probability 0.877501
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 649789 90 - 27905053
AUUUUAUGAUACGUCUGACUUGGUGGCUUUCGCCAUGAGGCUUAUG----UAUGUAUGUACAUAUGUAGUGUGGAAUCGCAUCGGCGGACUUCA
......(((...(((((.(((.(((((....))))).)))..((((----(((((....)))))))))(((((....)))))...))))).))) ( -24.80)
>DroSec_CAF1 70404 88 - 1
AUUGUAUCUUAAA----GGUUGGUGGCUUUCGCCAUGCGGCAC--AUACAUAUGUAUGUGCAUAUGUAGUGUGGAAUAGCAUCGGCUGACUUAA
............(----(((..((.(((....((((((.((((--((((....)))))))).......))))))...)))....))..)))).. ( -28.90)
>DroSim_CAF1 67371 90 - 1
AUUGUAUGUUAAA----GGUUGGUGGCUUUCGCCAUGCGGCUUAUGUACAUAUAUAUGUGCAUAUGUAGUGUGGAAUAGCAUCGGCUGACUUAA
............(----(((..((.(((....((((((.((.(((((((((....))))))))).)).))))))...)))....))..)))).. ( -30.00)
>consensus
AUUGUAUGUUAAA____GGUUGGUGGCUUUCGCCAUGCGGCUUAUGUACAUAUGUAUGUGCAUAUGUAGUGUGGAAUAGCAUCGGCUGACUUAA
.................((((((((.((....((((((.((.(((((((((....))))))))).)).))))))...))))))))))....... (-16.53 = -20.53 +   4.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:26 2006