Locus 8136

Sequence ID 3L_DroMel_CAF1
Location 21,445,468 – 21,445,561
Length 93
Max. P 0.800664
window13292 window13293

overview

Window 2

Location 21,445,468 – 21,445,561
Length 93
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 81.29
Mean single sequence MFE -20.18
Consensus MFE -14.74
Energy contribution -14.02
Covariance contribution -0.72
Combinations/Pair 1.39
Mean z-score -1.83
Structure conservation index 0.73
SVM decision value 0.62
SVM RNA-class probability 0.800664
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21445468 93 + 23771897
----AUACAUAAAGAUAAGCCAUCUAAUACUACUUCGAUCCCACAGAUUUUAUGUUCCCGCCAAACACGAAACUGGAGGACAUGAAGGUCUGCGAAA
----........((((.....))))................(.((((((((((((((...(((..........))).))))))))).))))).)... ( -16.60)
>DroSec_CAF1 4135 93 + 1
----AUACAUAAAGAUAAGCCAUCUAAUAAUACUUGGAUCCCACAGAUUUCAUGUUCCCGCCAAACACGAAAUUGGAGGACAUGAAGGUCUGCGAAA
----.................((((((......))))))..(.((((((((((((((...((((........)))).))))))))).))))).)... ( -21.90)
>DroSim_CAF1 1600 97 + 1
AGAGAUACAUAAAGAUAAGCCAUCUAAUAAUACUUGGAUCCCACAGAUUUCAUGUUCCCGCCAAACACGAAAUUGGAGGACAUGAAGGUCUGCGAAA
.....................((((((......))))))..(.((((((((((((((...((((........)))).))))))))).))))).)... ( -21.90)
>DroEre_CAF1 4180 92 + 1
----AUACGCAAAGAUAAGUCUUUUAAUAAUUCUG-GAUCCCACAGAUUUCAUGUUUCCGCCAAACACGAAACUUGAGGACAUGAAGGUCUGCGAAA
----...((((..(((...............((((-.......))))(((((((((..((..............))..))))))))))))))))... ( -18.44)
>DroWil_CAF1 24223 93 + 1
-AUCAAAAAUGAAUAUAAAUAAUAUAAUGUUAUUCAU---UUGUAGAUUUCAUGUUCCCACCAAAUACCAAACUGGAGGACAUGAAAGUUUGCGAGA
-.((..(((((((((...((......))..)))))))---))((((((((((((((((((.............))).))))))).)))))))))).. ( -23.12)
>DroYak_CAF1 1713 93 + 1
----AUAUCCAAAGAUACGCCAUUUAAUAUUUCUGGGAUCGUACAGAUUUCAUGUUCCCGCCAAACACGAAACUUGAGGACAUGAAGGUCUGCGAAA
----...((((.(((((..........))))).)))).(((..((((((((((((((.((..............)).))))))))).)))))))).. ( -19.14)
>consensus
____AUACAUAAAGAUAAGCCAUCUAAUAAUACUUGGAUCCCACAGAUUUCAUGUUCCCGCCAAACACGAAACUGGAGGACAUGAAGGUCUGCGAAA
.........................................(.(((((((((((((((((.............))).)))))))))).)))).)... (-14.74 = -14.02 +  -0.72)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 21,445,468 – 21,445,561
Length 93
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 81.29
Mean single sequence MFE -23.16
Consensus MFE -16.59
Energy contribution -17.95
Covariance contribution 1.36
Combinations/Pair 1.13
Mean z-score -1.70
Structure conservation index 0.72
SVM decision value 0.47
SVM RNA-class probability 0.748223
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21445468 93 - 23771897
UUUCGCAGACCUUCAUGUCCUCCAGUUUCGUGUUUGGCGGGAACAUAAAAUCUGUGGGAUCGAAGUAGUAUUAGAUGGCUUAUCUUUAUGUAU----
(..((((((..((.(((((((((((........)))).))).)))).)).))))))..)..((((.(((........)))...))))......---- ( -21.10)
>DroSec_CAF1 4135 93 - 1
UUUCGCAGACCUUCAUGUCCUCCAAUUUCGUGUUUGGCGGGAACAUGAAAUCUGUGGGAUCCAAGUAUUAUUAGAUGGCUUAUCUUUAUGUAU----
(..((((((..((((((((((((((........)))).))).))))))).))))))..).....((((....(((((...)))))....))))---- ( -27.20)
>DroSim_CAF1 1600 97 - 1
UUUCGCAGACCUUCAUGUCCUCCAAUUUCGUGUUUGGCGGGAACAUGAAAUCUGUGGGAUCCAAGUAUUAUUAGAUGGCUUAUCUUUAUGUAUCUCU
(..((((((..((((((((((((((........)))).))).))))))).))))))..).....((((....(((((...)))))....)))).... ( -27.30)
>DroEre_CAF1 4180 92 - 1
UUUCGCAGACCUUCAUGUCCUCAAGUUUCGUGUUUGGCGGAAACAUGAAAUCUGUGGGAUC-CAGAAUUAUUAAAAGACUUAUCUUUGCGUAU----
...(((.....(((..(((((((..((((((((((.....))))))))))..)).))))).-..)))......(((((....))))))))...---- ( -22.40)
>DroWil_CAF1 24223 93 - 1
UCUCGCAAACUUUCAUGUCCUCCAGUUUGGUAUUUGGUGGGAACAUGAAAUCUACAA---AUGAAUAACAUUAUAUUAUUUAUAUUCAUUUUUGAU-
..........(((((((((((((((........)))).))).))))))))((...((---(((((((...............)))))))))..)).- ( -19.66)
>DroYak_CAF1 1713 93 - 1
UUUCGCAGACCUUCAUGUCCUCAAGUUUCGUGUUUGGCGGGAACAUGAAAUCUGUACGAUCCCAGAAAUAUUAAAUGGCGUAUCUUUGGAUAU----
....(((((..((((((((((((((.......))))..))).))))))).)))))......(((((.((((........)))).)))))....---- ( -21.30)
>consensus
UUUCGCAGACCUUCAUGUCCUCCAGUUUCGUGUUUGGCGGGAACAUGAAAUCUGUGGGAUCCAAGUAUUAUUAGAUGGCUUAUCUUUAUGUAU____
(((((((((..((((((((((((((........)))).))).))))))).)))))))))...................................... (-16.59 = -17.95 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:12 2006