Locus 4050

Sequence ID 2L_DroMel_CAF1
Location 11,729,422 – 11,729,564
Length 142
Max. P 0.979266
window6379 window6380

overview

Window 9

Location 11,729,422 – 11,729,530
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 86.57
Mean single sequence MFE -25.84
Consensus MFE -16.84
Energy contribution -17.96
Covariance contribution 1.12
Combinations/Pair 1.19
Mean z-score -1.96
Structure conservation index 0.65
SVM decision value -0.00
SVM RNA-class probability 0.532829
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11729422 108 + 22407834
GUAUCUUUAACAAAUGAUAUCGCAUUACUUGAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCUACAUUCUGUGCAUCCAGAAUGCUAGAA
(((((..........)))))..................(((((..(((((.....)))))(((.....)))))))).((((((((((((......))))))).))))) ( -29.50)
>DroSec_CAF1 188840 108 + 1
GUACCUUUAACAAAUUAUAUCGCAUUACUUCAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCCACAUUCUGUGCAUCCAGAAUGCUAGAA
...................((.................(((((..(((((.....)))))(((.....))))))))......(((((((......)))))))...)). ( -24.60)
>DroSim_CAF1 181077 108 + 1
GUACCUUUAACAAAUUAUAUCGCAUUACUUCAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCCACAUUUUGUGCAUCGAGAAUGCUAGAA
.....................(((((.(((........(((((..(((((.....)))))(((.....))))))))....(((.....)))....))))))))..... ( -24.60)
>DroEre_CAF1 206703 108 + 1
GUACCUUUAACAAAUAAUAUCGCAUUAUUUGAACAGUUAUACUAGCCAGCAAUAUGCUGAGGCUUUGAGCCAGUAUGUUUAACAUUUUGAACAUGCAGUGAGAUCGAA
..........((((((((.....))))))))..(.(((.((((...((((.....)))).(((.....))).((((((((((....)))))))))))))).))).).. ( -26.30)
>DroYak_CAF1 181150 108 + 1
GUACCUUUAACAAAUUAUUUCGCAUUACUUGAACAUUAAUACUCGCCAGCAAUAUGCUGAGGCUUUGUGCCUGUAUGUUCUGCAUUCUGUGCAAGGAAAAUGCUUGAA
.....................(((((....((((((..........((((.....))))((((.....))))..))))))(((((...))))).....)))))..... ( -24.20)
>consensus
GUACCUUUAACAAAUUAUAUCGCAUUACUUGAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCCACAUUCUGUGCAUCCAGAAUGCUAGAA
...................((.........(((((....((((..(((((.....)))))(((.....))))))))))))..(((((((......)))))))...)). (-16.84 = -17.96 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,729,451 – 11,729,564
Length 113
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 79.30
Mean single sequence MFE -31.24
Consensus MFE -19.40
Energy contribution -20.76
Covariance contribution 1.36
Combinations/Pair 1.21
Mean z-score -2.48
Structure conservation index 0.62
SVM decision value 1.83
SVM RNA-class probability 0.979266
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11729451 113 + 22407834
UGAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCUACAUUCUGUGCAUCCAGAAUGCUAGAAUGUCCUAAAUUCCCACAGCCAAUGCUUGAAUUAA------
.(((((....((((..(((((.....)))))(((.....)))))))))))).((((((((.((((.....))))))))))))....(((((....(((....))).)))))..------ ( -33.30)
>DroSec_CAF1 188869 119 + 1
UCAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCCACAUUCUGUGCAUCCAGAAUGCUAGAAUGUACUAAAUUCCCACAGCCAAUGCUUGAAUUAAAUGCUC
((((((((.(((((..(((((.....)))))(((.....)))))))).....((((((((.((((.....)))))))))))).................)))).))))........... ( -33.00)
>DroSim_CAF1 181106 119 + 1
UCAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCCACAUUUUGUGCAUCGAGAAUGCUAGAAUGUACUAAAUUCCCACAGCCAAUGCUUGGAUUAAAUGCUC
....((((.(((((..(((((.....)))))(((.....)))))))).....((((((((.((((.....)))))))))))).........(((.(((....))))))....))))... ( -31.40)
>DroEre_CAF1 206732 110 + 1
UGAACAGUUAUACUAGCCAGCAAUAUGCUGAGGCUUUGAGCCAGUAUGUUUAACAUUUUGAACAUGCAGUGAGAUCGAAUGGUCCAAAUUCGCACAGCCAAUUGUUCAUU---------
(((((((((........((((.....)))).((((........((((((((((....)))))))))).(((....(((((.......)))))))))))))))))))))..--------- ( -34.20)
>DroYak_CAF1 181179 110 + 1
UGAACAUUAAUACUCGCCAGCAAUAUGCUGAGGCUUUGUGCCUGUAUGUUCUGCAUUCUGUGCAAGGAAAAUGCUUGAAUUUCCCAAAUACCCACAGCCAGCGCUCGAAU---------
.((((((..........((((.....))))((((.....))))..)))))).((...(((((...((.((((......)))).)).......)))))...))........--------- ( -24.30)
>consensus
UGAACAUUAAUACCAACCAGCAAUAUGUUGGGGCUUUGUGCCGGUAUGUUCCACAUUCUGUGCAUCCAGAAUGCUAGAAUGUACUAAAUUCCCACAGCCAAUGCUUGAAUUAA______
.(((((....((((..(((((.....)))))(((.....)))))))))))).((((((((.((((.....))))))))))))..................................... (-19.40 = -20.76 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:02 2006