Locus 8096

Sequence ID X_DroMel_CAF1
Location 20,152,399 – 20,152,503
Length 104
Max. P 0.992075
window13288 window13289

overview

Window 8

Location 20,152,399 – 20,152,503
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.03
Mean single sequence MFE -34.74
Consensus MFE -19.30
Energy contribution -20.38
Covariance contribution 1.08
Combinations/Pair 1.08
Mean z-score -3.10
Structure conservation index 0.56
SVM decision value 1.86
SVM RNA-class probability 0.980433
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20152399 104 + 22224390
-------AUGCUGGC----GCAGGAGUGGAUGCAUGAGUUGAUGCCAACAACGUAUUAAUUUUGUGUAUCAAAAUAAACUUAUUGUUCUGGCAUUCUGCCCG-----CUCCAAGCCAGCC
-------..((((((----...((((((((((((..(((((((((.......))))))).))..))))))...................(((.....)))))-----))))..)))))). ( -40.60)
>DroSec_CAF1 7499 108 + 1
-------AUGCGGAUGCUGGCAGGAGUGGAUGCAUGAGUUGAUGCCAACAACGUAUUAAUUUUGUGUAUCAAAAUAAACUUAUUGUUCUGGCAUUCUGCCCG-----CUCCAAGCCAGCC
-------........((((((.((((((((((((..(((((((((.......))))))).))..))))))...................(((.....)))))-----))))..)))))). ( -39.40)
>DroSim_CAF1 12578 108 + 1
-------AUGCGGAUGCUGGCAGGAGUGGAUGCAUGAGUUGAUGCCAACAACGUAUUAAUUUUGUGUAUCAAAAUAAACUUAUUGUUCUGGCAUUCUGCCCG-----CUCCAAACCAGCC
-------........(((((..((((((((((((..(((((((((.......))))))).))..))))))...................(((.....)))))-----))))...))))). ( -36.10)
>DroEre_CAF1 3094 97 + 1
-----------------------AGCUGGAUGCAUGAGCUGAUGCCAACAACGUAUUAAUUUUGUGUAUCAAAAUAAACUUAUUGUUCUGGCAUUCAGCCCGGCCCGCUCCAAGCCAGCC
-----------------------.(((((..((.((.((((((((((((((.(..((.((((((.....)))))).))..).))))..))))).))))).))....))......))))). ( -28.50)
>DroYak_CAF1 5630 104 + 1
ACUGACAAGGUGGAUGCUGGCAGGAGUGGAUGCAUGAGUUGAUGCCAACAACGUAUUAAUUUUGUGUAUCAAAAUAAACUUAUUGUUCUGGCAUUCUGCCCG-----CU-----------
........((..(((((..((((((((.((((((..(((((((((.......))))))).))..)))))).......)))).)))..)..))).))..))..-----..----------- ( -29.10)
>consensus
_______AUGCGGAUGCUGGCAGGAGUGGAUGCAUGAGUUGAUGCCAACAACGUAUUAAUUUUGUGUAUCAAAAUAAACUUAUUGUUCUGGCAUUCUGCCCG_____CUCCAAGCCAGCC
..................(((((((...((((((..(((((((((.......))))))).))..)))))).............(((....)))))))))).................... (-19.30 = -20.38 +   1.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,152,399 – 20,152,503
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.03
Mean single sequence MFE -35.20
Consensus MFE -17.30
Energy contribution -18.38
Covariance contribution 1.08
Combinations/Pair 1.03
Mean z-score -3.74
Structure conservation index 0.49
SVM decision value 2.31
SVM RNA-class probability 0.992075
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20152399 104 - 22224390
GGCUGGCUUGGAG-----CGGGCAGAAUGCCAGAACAAUAAGUUUAUUUUGAUACACAAAAUUAAUACGUUGUUGGCAUCAACUCAUGCAUCCACUCCUGC----GCCAGCAU-------
.((((((..((((-----.(((((((((((((..(((((..(((.((((((.....)))))).)))..)))))))))))....)).)))..)).))))...----))))))..------- ( -38.60)
>DroSec_CAF1 7499 108 - 1
GGCUGGCUUGGAG-----CGGGCAGAAUGCCAGAACAAUAAGUUUAUUUUGAUACACAAAAUUAAUACGUUGUUGGCAUCAACUCAUGCAUCCACUCCUGCCAGCAUCCGCAU-------
.((((((..((((-----.(((((((((((((..(((((..(((.((((((.....)))))).)))..)))))))))))....)).)))..)).)))).))))))........------- ( -39.00)
>DroSim_CAF1 12578 108 - 1
GGCUGGUUUGGAG-----CGGGCAGAAUGCCAGAACAAUAAGUUUAUUUUGAUACACAAAAUUAAUACGUUGUUGGCAUCAACUCAUGCAUCCACUCCUGCCAGCAUCCGCAU-------
.((((((..((((-----.(((((((((((((..(((((..(((.((((((.....)))))).)))..)))))))))))....)).)))..)).)))).))))))........------- ( -37.30)
>DroEre_CAF1 3094 97 - 1
GGCUGGCUUGGAGCGGGCCGGGCUGAAUGCCAGAACAAUAAGUUUAUUUUGAUACACAAAAUUAAUACGUUGUUGGCAUCAGCUCAUGCAUCCAGCU-----------------------
((((.((.....)).))))(((((((.(((((..(((((..(((.((((((.....)))))).)))..)))))))))))))))))..((.....)).----------------------- ( -37.20)
>DroYak_CAF1 5630 104 - 1
-----------AG-----CGGGCAGAAUGCCAGAACAAUAAGUUUAUUUUGAUACACAAAAUUAAUACGUUGUUGGCAUCAACUCAUGCAUCCACUCCUGCCAGCAUCCACCUUGUCAGU
-----------.(-----(.(((((.((((((..(((((..(((.((((((.....)))))).)))..))))))))))).......((....))...))))).))............... ( -23.90)
>consensus
GGCUGGCUUGGAG_____CGGGCAGAAUGCCAGAACAAUAAGUUUAUUUUGAUACACAAAAUUAAUACGUUGUUGGCAUCAACUCAUGCAUCCACUCCUGCCAGCAUCCGCAU_______
....((..((((.......(((..((.(((((..(((((..(((.((((((.....)))))).)))..))))))))))))..))).....))))..))...................... (-17.30 = -18.38 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:20 2006