Locus 531

Sequence ID 3L_DroMel_CAF1
Location 1,558,320 – 1,558,412
Length 92
Max. P 0.999949
window801 window802

overview

Window 1

Location 1,558,320 – 1,558,412
Length 92
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 77.14
Mean single sequence MFE -22.50
Consensus MFE -17.98
Energy contribution -18.35
Covariance contribution 0.37
Combinations/Pair 1.17
Mean z-score -3.76
Structure conservation index 0.80
SVM decision value 4.78
SVM RNA-class probability 0.999949
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1558320 92 + 23771897
AUAUAUAUCAUAUAUCCGUGCCUCGAUUAAGAUUUUUAUCGUAGAAU---------------UAACUAAUAACUAAAAUCUUCAGUAACAUACUUAAUCGAGGAAUG
................(((.((((((((((((((((.....(((...---------------...)))......)))))))..((((...))))))))))))).))) ( -17.70)
>DroSec_CAF1 2806 90 + 1
AUA--UAUCAUAUAACCAUGCCUCGAUAAAGAUUUGUAUCGUAGAAU---------------UACCUAAUAACUAACAACUUCAGUAACUUACUUAAGCGAGGCAUG
...--...........(((((((((.....(((....))).......---------------.................(((.((((...)))).)))))))))))) ( -18.10)
>DroSim_CAF1 2816 90 + 1
AUA--UAUCAUAUAUCCGUGCCUCGAUUAAGAUGUUUAUCGUAGAAU---------------UGCCUAAUAACUAACAACUUCAGUAACUUACUUAAUCGAGGCAUG
...--...........(((((((((((((((.((((.....(((...---------------...)))......))))((....))......))))))))))))))) ( -25.90)
>DroEre_CAF1 8883 105 + 1
AUAUAUAUC--ACACCCAUGCCUCGAUUAAGAUUUCUUUCGGAGAAUCACAUAUAGAAUGACUAACUAACAACCAAAUUAUUCGGGAAAUAACUUAAUCGAGGCAUG
.........--.....((((((((((((((((((((((..(........).....((((((................)))))))))))))..))))))))))))))) ( -28.29)
>consensus
AUA__UAUCAUAUAUCCAUGCCUCGAUUAAGAUUUUUAUCGUAGAAU_______________UAACUAAUAACUAAAAACUUCAGUAACUUACUUAAUCGAGGCAUG
................(((((((((((((((..(((((...))))).........................(((.........)))......))))))))))))))) (-17.98 = -18.35 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,558,320 – 1,558,412
Length 92
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 77.14
Mean single sequence MFE -24.40
Consensus MFE -17.40
Energy contribution -18.53
Covariance contribution 1.13
Combinations/Pair 1.05
Mean z-score -2.91
Structure conservation index 0.71
SVM decision value 3.71
SVM RNA-class probability 0.999547
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1558320 92 - 23771897
CAUUCCUCGAUUAAGUAUGUUACUGAAGAUUUUAGUUAUUAGUUA---------------AUUCUACGAUAAAAAUCUUAAUCGAGGCACGGAUAUAUGAUAUAUAU
....(((((((((((....(((.((.(((..((((.......)))---------------).))).)).)))....))))))))))).................... ( -18.10)
>DroSec_CAF1 2806 90 - 1
CAUGCCUCGCUUAAGUAAGUUACUGAAGUUGUUAGUUAUUAGGUA---------------AUUCUACGAUACAAAUCUUUAUCGAGGCAUGGUUAUAUGAUA--UAU
((((((((......((((((((((..(((........))).))))---------------))).)))((((........))))))))))))...........--... ( -22.30)
>DroSim_CAF1 2816 90 - 1
CAUGCCUCGAUUAAGUAAGUUACUGAAGUUGUUAGUUAUUAGGCA---------------AUUCUACGAUAAACAUCUUAAUCGAGGCACGGAUAUAUGAUA--UAU
..(((((((((((((....(((.((.(((((((........))))---------------)))...)).)))....))))))))))))).............--... ( -24.90)
>DroEre_CAF1 8883 105 - 1
CAUGCCUCGAUUAAGUUAUUUCCCGAAUAAUUUGGUUGUUAGUUAGUCAUUCUAUAUGUGAUUCUCCGAAAGAAAUCUUAAUCGAGGCAUGGGUGU--GAUAUAUAU
(((((((((((((((..(((((((((.....))))...(..(..((((((.......))))))..)..)..)))))))))))))))))))).....--......... ( -32.30)
>consensus
CAUGCCUCGAUUAAGUAAGUUACUGAAGAUGUUAGUUAUUAGGUA_______________AUUCUACGAUAAAAAUCUUAAUCGAGGCACGGAUAUAUGAUA__UAU
(((((((((((((((......(((((.....)))))..........................((...)).......)))))))))))))))................ (-17.40 = -18.53 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:29 2006