Locus 3747

Sequence ID 2L_DroMel_CAF1
Location 10,893,657 – 10,893,771
Length 114
Max. P 0.959689
window5899 window5900

overview

Window 9

Location 10,893,657 – 10,893,771
Length 114
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 66.09
Mean single sequence MFE -20.43
Consensus MFE -13.87
Energy contribution -16.10
Covariance contribution 2.23
Combinations/Pair 1.10
Mean z-score -1.26
Structure conservation index 0.68
SVM decision value 1.50
SVM RNA-class probability 0.959689
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10893657 114 + 22407834
----AGAAAGCUAAAAACAAAAAUAUACCAAGAGAUAUAAGAUCAAAGGUGUGUAAAAGUAUGAAACUAAUUCACUUGAAUCGUUUAU-UUUUCGUAGCUUACUAUUAGAUACAUUUAU-
----((.((((((.........(((((((....(((.....)))...)))))))(((((((...(((..((((....)))).))))))-))))..)))))).))...............- ( -15.50)
>DroEre_CAF1 33453 109 + 1
AACUCCUAAGCUAAA-----ACUAAAAC--CGGGAUA-AAGGUCAAAGGUGUGUAAAAGUGUUCUACA---CUAAUGGAUUCGCUUAUUUUUUCAUAGCAUACUUCUAGACACCUUUAUC
...............-----......((--(......-..))).((((((((.((.((((((((((..---....))))...(((...........))))))))).)).))))))))... ( -21.30)
>DroYak_CAF1 34228 105 + 1
----AGUAGGCUAAAU----AAUAAAAC--AGAGGUG-CAGCACAAAGGUGUGUAAAAGUAGGCUACAAUUCUAAUAGACUCGCUUUUACUUUCGUAGCAUACUUUUAAACACCUU----
----.....(((..((----........--....)).-.)))...(((((((.((((((((.(((((.....(((.((.....)).))).....))))).)))))))).)))))))---- ( -24.50)
>consensus
____AGUAAGCUAAA_____AAUAAAAC__AGAGAUA_AAGAUCAAAGGUGUGUAAAAGUAUGCUACAA_UCUAAUAGAAUCGCUUAU_UUUUCGUAGCAUACUUUUAGACACCUUUAU_
............................................((((((((.((((((((.(((((...........................))))).)))))))).))))))))... (-13.87 = -16.10 +   2.23)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,893,657 – 10,893,771
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 66.09
Mean single sequence MFE -21.86
Consensus MFE -13.20
Energy contribution -15.76
Covariance contribution 2.56
Combinations/Pair 1.09
Mean z-score -1.35
Structure conservation index 0.60
SVM decision value 0.91
SVM RNA-class probability 0.879203
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10893657 114 - 22407834
-AUAAAUGUAUCUAAUAGUAAGCUACGAAAA-AUAAACGAUUCAAGUGAAUUAGUUUCAUACUUUUACACACCUUUGAUCUUAUAUCUCUUGGUAUAUUUUUGUUUUUAGCUUUCU----
-...............((.((((((...(((-(((((.(((.((((((.(..(((.....)))..).)))....)))))).((((((....))))))..)))))))))))))).))---- ( -16.50)
>DroEre_CAF1 33453 109 - 1
GAUAAAGGUGUCUAGAAGUAUGCUAUGAAAAAAUAAGCGAAUCCAUUAG---UGUAGAACACUUUUACACACCUUUGACCUU-UAUCCCG--GUUUUAGU-----UUUAGCUUAGGAGUU
..(((((((((.(((((((.((((((......)).)))).........(---(.....))))))))).))))))))).....-..(((.(--(((.....-----...))))..)))... ( -23.30)
>DroYak_CAF1 34228 105 - 1
----AAGGUGUUUAAAAGUAUGCUACGAAAGUAAAAGCGAGUCUAUUAGAAUUGUAGCCUACUUUUACACACCUUUGUGCUG-CACCUCU--GUUUUAUU----AUUUAGCCUACU----
----(((((((.((((((((.(((((....)))...((((.((.....)).)))).)).)))))))).)))))))...((((-.......--........----...)))).....---- ( -25.77)
>consensus
_AUAAAGGUGUCUAAAAGUAUGCUACGAAAA_AUAAGCGAAUCAAUUAGA_UUGUAGCAUACUUUUACACACCUUUGACCUU_UAUCUCU__GUUUUAUU_____UUUAGCUUACU____
..(((((((((.((((((((.(((((...........................))))).)))))))).)))))))))........................................... (-13.20 = -15.76 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:02 2006