Locus 505

Sequence ID X_DroMel_CAF1
Location 1,439,408 – 1,439,518
Length 110
Max. P 0.983542
window783 window784

overview

Window 3

Location 1,439,408 – 1,439,518
Length 110
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 99.39
Mean single sequence MFE -25.63
Consensus MFE -25.40
Energy contribution -25.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.84
Structure conservation index 0.99
SVM decision value 1.95
SVM RNA-class probability 0.983542
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1439408 110 + 22224390
CGAAGGAGCGCAAGAACGAAAAGGAAAACGCGAAAAAGAAAAUGUUCGCGCGAGAAAUGUUAAAAAAUAUUUUUAUAGCUCCGCGAAUGUUAGAAUAGUGUUUGUGGGGG
.......((((.....((....(.....).)).....(((....))))))).(((((((((....)))))))))....(((((((((..(((...)))..))))))))). ( -25.40)
>DroSec_CAF1 44162 110 + 1
CGAAGGAGCGCAAGAACGAAAAGGAAAACGCGAAAAAGAAAAUGUUCGCGCGAGAAAUGUUAAAAAAUAUUUUUAUAGCUCCGCGAAUGUUAGAAUAGUGUUUGUGGGGG
.......((((.....((....(.....).)).....(((....))))))).(((((((((....)))))))))....(((((((((..(((...)))..))))))))). ( -25.40)
>DroEre_CAF1 41066 110 + 1
CGAAAGAGCGCAAGAACGAAAAGGAAAACGCGAAAAAGAAAAUGUUCGCGCGAGAAAUGUUAAAAAAUAUUUUUAUAGCUCCGCGAAUGUUAGAAUAGUGUUUGUGGGGG
(....).((((.....((....(.....).)).....(((....))))))).(((((((((....)))))))))....(((((((((..(((...)))..))))))))). ( -26.10)
>consensus
CGAAGGAGCGCAAGAACGAAAAGGAAAACGCGAAAAAGAAAAUGUUCGCGCGAGAAAUGUUAAAAAAUAUUUUUAUAGCUCCGCGAAUGUUAGAAUAGUGUUUGUGGGGG
.......((((.....((....(.....).)).....(((....))))))).(((((((((....)))))))))....(((((((((..(((...)))..))))))))). (-25.40 = -25.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,439,408 – 1,439,518
Length 110
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 99.39
Mean single sequence MFE -16.67
Consensus MFE -16.49
Energy contribution -16.27
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.96
Structure conservation index 0.99
SVM decision value 0.92
SVM RNA-class probability 0.881228
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1439408 110 - 22224390
CCCCCACAAACACUAUUCUAACAUUCGCGGAGCUAUAAAAAUAUUUUUUAACAUUUCUCGCGCGAACAUUUUCUUUUUCGCGUUUUCCUUUUCGUUCUUGCGCUCCUUCG
............................(((((..........................(((((((.(......).)))))))..........((....))))))).... ( -17.20)
>DroSec_CAF1 44162 110 - 1
CCCCCACAAACACUAUUCUAACAUUCGCGGAGCUAUAAAAAUAUUUUUUAACAUUUCUCGCGCGAACAUUUUCUUUUUCGCGUUUUCCUUUUCGUUCUUGCGCUCCUUCG
............................(((((..........................(((((((.(......).)))))))..........((....))))))).... ( -17.20)
>DroEre_CAF1 41066 110 - 1
CCCCCACAAACACUAUUCUAACAUUCGCGGAGCUAUAAAAAUAUUUUUUAACAUUUCUCGCGCGAACAUUUUCUUUUUCGCGUUUUCCUUUUCGUUCUUGCGCUCUUUCG
.........................((((((((..(((((.....))))).........(((((((.(......).)))))))..........)))).))))........ ( -15.60)
>consensus
CCCCCACAAACACUAUUCUAACAUUCGCGGAGCUAUAAAAAUAUUUUUUAACAUUUCUCGCGCGAACAUUUUCUUUUUCGCGUUUUCCUUUUCGUUCUUGCGCUCCUUCG
............................(((((..........................(((((((.(......).)))))))..........((....))))))).... (-16.49 = -16.27 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:16 2006