Locus 9772

Sequence ID 3R_DroMel_CAF1
Location 25,892,273 – 25,892,366
Length 93
Max. P 0.921717
window15609 window15610

overview

Window 9

Location 25,892,273 – 25,892,366
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 82.35
Mean single sequence MFE -20.74
Consensus MFE -14.28
Energy contribution -14.88
Covariance contribution 0.60
Combinations/Pair 1.10
Mean z-score -2.27
Structure conservation index 0.69
SVM decision value 1.14
SVM RNA-class probability 0.921717
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25892273 93 + 27905053
AUGUUUUUUAAGACUCUGUAGAUGAGGAAUGCGUAGAAAUUCCUUAUCAGCAUCGUUGAAAAGAAAAAUACUUUUACAAAGUCGCGACAUUGA
(((((......((((.((((((((((((((........))))))))))....((........))..........)))).))))..)))))... ( -21.80)
>DroSec_CAF1 19372 91 + 1
AUGUUUUUCAAGAC--UGUAGAUGAGGAAUGCGAAGAAAUUCCUUAUCACCAUCGCUGAAAAGAAAAAUACUUUUACAAAGUCGCGACUUUGA
...(((((((.((.--((..((((((((((........))))))))))..))))..))))))).............((((((....)))))). ( -24.80)
>DroSim_CAF1 19439 93 + 1
AUGUUUUUCAAGACUCUGUAGAUGAGGAAUGCGAAGAAAUUCCUUAUCACCAUCGCUGAAAAGAAAAAUACUUUUACAAAGUCGCGACAUUGA
(((((......((((.((((((((((((((........)))))))))).......((....))...........)))).))))..)))))... ( -22.90)
>DroEre_CAF1 27257 74 + 1
AUGUUUUUCAAGACUCUGUAGAUAAGGAAUGUGCAGAAAUUCCUUAUCAGCAUCGCCGAAAAGAAGAUUACUUU-------------------
...((((((..((...(((.((((((((((........)))))))))).)))))...))))))...........------------------- ( -18.00)
>DroYak_CAF1 26675 92 + 1
AUGUUUUUCAAGAGUCUGUAGAUAAGAAAAGCAAAGAAAUGCCUUAUCAGCAUCGCCGAAAAGAAAAAUACUUUUACC-UGCCGCGACUUUGA
..........(((((((((.((((((....(((......))))))))).)))..((..(((((.......)))))...-.))...)))))).. ( -16.20)
>consensus
AUGUUUUUCAAGACUCUGUAGAUGAGGAAUGCGAAGAAAUUCCUUAUCAGCAUCGCUGAAAAGAAAAAUACUUUUACAAAGUCGCGACAUUGA
...((((((..((...(((.((((((((((........)))))))))).)))))...)))))).............................. (-14.28 = -14.88 +   0.60)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 25,892,273 – 25,892,366
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 82.35
Mean single sequence MFE -19.98
Consensus MFE -10.54
Energy contribution -10.78
Covariance contribution 0.24
Combinations/Pair 1.16
Mean z-score -2.10
Structure conservation index 0.53
SVM decision value 0.05
SVM RNA-class probability 0.557024
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25892273 93 - 27905053
UCAAUGUCGCGACUUUGUAAAAGUAUUUUUCUUUUCAACGAUGCUGAUAAGGAAUUUCUACGCAUUCCUCAUCUACAGAGUCUUAAAAAACAU
..........(((((((((..((((((.((......)).))))))(((.((((((........)))))).))))))))))))........... ( -21.20)
>DroSec_CAF1 19372 91 - 1
UCAAAGUCGCGACUUUGUAAAAGUAUUUUUCUUUUCAGCGAUGGUGAUAAGGAAUUUCUUCGCAUUCCUCAUCUACA--GUCUUGAAAAACAU
.((((((....))))))..............(((((((.(((.(((((.((((((........)))))).))).)).--)))))))))).... ( -20.30)
>DroSim_CAF1 19439 93 - 1
UCAAUGUCGCGACUUUGUAAAAGUAUUUUUCUUUUCAGCGAUGGUGAUAAGGAAUUUCUUCGCAUUCCUCAUCUACAGAGUCUUGAAAAACAU
......(((.(((((((((((((.......))))...........(((.((((((........)))))).)))))))))))).)))....... ( -19.90)
>DroEre_CAF1 27257 74 - 1
-------------------AAAGUAAUCUUCUUUUCGGCGAUGCUGAUAAGGAAUUUCUGCACAUUCCUUAUCUACAGAGUCUUGAAAAACAU
-------------------............((((((((..((..((((((((((........))))))))))..))..)))..))))).... ( -18.70)
>DroYak_CAF1 26675 92 - 1
UCAAAGUCGCGGCA-GGUAAAAGUAUUUUUCUUUUCGGCGAUGCUGAUAAGGCAUUUCUUUGCUUUUCUUAUCUACAGACUCUUGAAAAACAU
((((((((...(.(-(((((..........(((.(((((...))))).)))(((......))).....)))))).).)))).))))....... ( -19.80)
>consensus
UCAAAGUCGCGACUUUGUAAAAGUAUUUUUCUUUUCAGCGAUGCUGAUAAGGAAUUUCUUCGCAUUCCUCAUCUACAGAGUCUUGAAAAACAU
...............................(((((((.(((...(((.((((((........)))))).)))......)))))))))).... (-10.54 = -10.78 +   0.24)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:41:51 2006