Locus 7269

Sequence ID X_DroMel_CAF1
Location 18,110,895 – 18,111,004
Length 109
Max. P 0.975258
window11905 window11906

overview

Window 5

Location 18,110,895 – 18,111,004
Length 109
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 85.51
Mean single sequence MFE -44.03
Consensus MFE -34.97
Energy contribution -35.75
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -3.17
Structure conservation index 0.79
SVM decision value 1.63
SVM RNA-class probability 0.968508
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18110895 109 + 22224390
AUUCGAGCGGAGCGAACAUG----ACCGGCGGACUGGGCGUCCGCCUCCUCAUUAGUAUGCUCAUAGUAAC-----UGAGGAGUUCAGUCAGUCUCCGCCGGCCACAAAAACAAAAAA
..(((.(((((((..((.((----(.((((((((.....)))))))(((((((((.(((....))).))).-----))))))).)))))..).)))))))))................ ( -42.30)
>DroSec_CAF1 19361 109 + 1
AUUCGAGCGGAGCGGACAUG----ACCGGCGGACUGGGCGUCCGCCUCCUCAUUAGUAUGCUCAUAGUAAC-----UGAGGAGUUCAGUCAGUCUCCGCCGGACCCAAAAACAAAAAA
.((((.(((((((.(((.((----(.((((((((.....)))))))(((((((((.(((....))).))).-----))))))).)))))).).))))))))))............... ( -46.30)
>DroYak_CAF1 19201 115 + 1
CUUCAAGCGGAGCGGACCGGACCG-UCGGCGGACUGGGCGUCCGCCUCCUCAUUAGUAUGCUCAUAGUAACUGAACUGAGGAGUUCAGUCAGUUCCCGCCGGCCCGAAAAAGAAAU--
......(((((((.(((.((((..-..(((((((.....)))))))(((((((((((.(((.....))))))))..)))))))))).))).))).)))).................-- ( -43.50)
>consensus
AUUCGAGCGGAGCGGACAUG____ACCGGCGGACUGGGCGUCCGCCUCCUCAUUAGUAUGCUCAUAGUAAC_____UGAGGAGUUCAGUCAGUCUCCGCCGGCCCCAAAAACAAAAAA
..(((.(((((((.(((..........(((((((.....)))))))((((((......(((.....))).......)))))).....))).).)))))))))................ (-34.97 = -35.75 +   0.78)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 18,110,895 – 18,111,004
Length 109
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 85.51
Mean single sequence MFE -47.57
Consensus MFE -37.16
Energy contribution -36.83
Covariance contribution -0.33
Combinations/Pair 1.11
Mean z-score -3.47
Structure conservation index 0.78
SVM decision value 1.75
SVM RNA-class probability 0.975258
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18110895 109 - 22224390
UUUUUUGUUUUUGUGGCCGGCGGAGACUGACUGAACUCCUCA-----GUUACUAUGAGCAUACUAAUGAGGAGGCGGACGCCCAGUCCGCCGGU----CAUGUUCGCUCCGCUCGAAU
......((((..((((..((((((.(.((((((..(((((((-----.(((.(((....))).))))))))))((((((.....))))))))))----))).))))))))))..)))) ( -44.50)
>DroSec_CAF1 19361 109 - 1
UUUUUUGUUUUUGGGUCCGGCGGAGACUGACUGAACUCCUCA-----GUUACUAUGAGCAUACUAAUGAGGAGGCGGACGCCCAGUCCGCCGGU----CAUGUCCGCUCCGCUCGAAU
.........(((((((..((((((.(.((((((..(((((((-----.(((.(((....))).))))))))))((((((.....))))))))))----))).))))))..))))))). ( -48.60)
>DroYak_CAF1 19201 115 - 1
--AUUUCUUUUUCGGGCCGGCGGGAACUGACUGAACUCCUCAGUUCAGUUACUAUGAGCAUACUAAUGAGGAGGCGGACGCCCAGUCCGCCGA-CGGUCCGGUCCGCUCCGCUUGAAG
--........(((((((.((((((....(((((...(((((((((((.......))))).......))))))(((((((.....)))))))..-)))))...))))).).))))))). ( -49.61)
>consensus
UUUUUUGUUUUUGGGGCCGGCGGAGACUGACUGAACUCCUCA_____GUUACUAUGAGCAUACUAAUGAGGAGGCGGACGCCCAGUCCGCCGGU____CAUGUCCGCUCCGCUCGAAU
.................((((((((...(((.....((((((.....(((......))).......))))))(((((((.....)))))))..........)))..)))))).))... (-37.16 = -36.83 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:42 2006