Locus 8495

Sequence ID 3L_DroMel_CAF1
Location 22,289,172 – 22,289,326
Length 154
Max. P 0.753073
window13902 window13903

overview

Window 2

Location 22,289,172 – 22,289,286
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 87.01
Mean single sequence MFE -31.83
Consensus MFE -25.48
Energy contribution -25.60
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -2.17
Structure conservation index 0.80
SVM decision value 0.47
SVM RNA-class probability 0.749360
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22289172 114 - 23771897
AAAUUGUUUAAACAAUAGAACAAGGUGGGCUGAGAGGCGGUCAAAAGCCGUUUCCUUUUACGAAUUCUUCGUAGAACACGGGUCGAGAAGGAGAACAGAGUUCCACA------UAAUUAA
...((((((........)))))).((((((((...(((........))).(((((((((.(((....(((((.....))))))))))))))))).)))...))))).------....... ( -29.50)
>DroSec_CAF1 47590 114 - 1
AAAUUGUUUAGACAAUAGAAGAAGGUGGGCUGAGAGGCGGUCGCAAGCCGUUUCUUUUUACGAAUUCUUUGUAGAACAUGGGUCGAAAAGGAGAACAGAGUUCCAUA------UAAUUAA
..(((((....))))).((((((..((....(((((((((.(....))))))))))....))..))))))...((((.((..((........)).))..))))....------....... ( -28.60)
>DroEre_CAF1 46056 120 - 1
AAAUUGUUUAAACAAUAGAAGAAGGCGGCCUGAGAGGCGGUCACAAGCCGCUUCUUUUUACGUAUUCUUCGUAGAACGUGGCUCGAAAAGGAGAACAGAGCUCUAUACGAGUGUAAUUAA
..(((((....))))).((((((.(((....((((((((((.....))))))))))....))).))))))..........(((((....((((.......))))...)))))........ ( -37.40)
>consensus
AAAUUGUUUAAACAAUAGAAGAAGGUGGGCUGAGAGGCGGUCACAAGCCGUUUCUUUUUACGAAUUCUUCGUAGAACAUGGGUCGAAAAGGAGAACAGAGUUCCAUA______UAAUUAA
..(((((....))))).((((((..((....((((((((((.....))))))))))....))..))))))((.((((...(.((........)).)...)))).)).............. (-25.48 = -25.60 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 22,289,206 – 22,289,326
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.22
Mean single sequence MFE -31.17
Consensus MFE -22.56
Energy contribution -22.57
Covariance contribution 0.01
Combinations/Pair 1.12
Mean z-score -1.72
Structure conservation index 0.72
SVM decision value 0.48
SVM RNA-class probability 0.753073
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22289206 120 - 23771897
UCAUUAAAAGACAUAGGCCAGACGAAUAAGCAUUCGACAAAAAUUGUUUAAACAAUAGAACAAGGUGGGCUGAGAGGCGGUCAAAAGCCGUUUCCUUUUACGAAUUCUUCGUAGAACACG
...............((((...(((((....))))).((....((((((........))))))..))))))..((((((((.....)))))))).((((((((.....)))))))).... ( -29.20)
>DroSec_CAF1 47624 106 - 1
UCAUUAGAAGACAG--------------AGCGUCCGACAAAAAUUGUUUAGACAAUAGAAGAAGGUGGGCUGAGAGGCGGUCGCAAGCCGUUUCUUUUUACGAAUUCUUUGUAGAACAUG
..............--------------.(((((.((((.....))))..)))....((((((..((....(((((((((.(....))))))))))....))..))))))))........ ( -26.00)
>DroEre_CAF1 46096 119 - 1
UCAUUAGAAGACUGAGCCCAAAUG-UUGGGCACCCGACAAAAAUUGUUUAAACAAUAGAAGAAGGCGGCCUGAGAGGCGGUCACAAGCCGCUUCUUUUUACGUAUUCUUCGUAGAACGUG
...((((....))))(((((....-.)))))...((......(((((....))))).((((((.(((....((((((((((.....))))))))))....))).))))))......)).. ( -38.30)
>consensus
UCAUUAGAAGACAGAG_CCA_A_G__U_AGCAUCCGACAAAAAUUGUUUAAACAAUAGAAGAAGGUGGGCUGAGAGGCGGUCACAAGCCGUUUCUUUUUACGAAUUCUUCGUAGAACAUG
.............................((...........(((((....))))).((((((..((....((((((((((.....))))))))))....))..))))))))........ (-22.56 = -22.57 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:03 2006