Locus 5644

Sequence ID 3L_DroMel_CAF1
Location 15,493,405 – 15,493,565
Length 160
Max. P 0.855318
window8922 window8923

overview

Window 2

Location 15,493,405 – 15,493,525
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -32.27
Consensus MFE -29.87
Energy contribution -29.87
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.93
SVM decision value 0.12
SVM RNA-class probability 0.594258
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15493405 120 - 23771897
AGAAGACCUUGAUUUUGAUUGACUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGAACUCCACAAUGAUCGAGAAUGCAGCAAUCUUUGCGCGUGGAACUGCUAUUGAU
.................((..(...((....((((((((((......))))))))))....(((((..(((..........)))...((((......)))).)))))....))..)..)) ( -31.70)
>DroSec_CAF1 34621 120 - 1
AGAAGACCUUGAUUUUGAUUGACUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGAACUCCACAAAGAUCGAGAAUGCAGCAAUCUUUACGCGUGGAACUGCUAUUGAU
......((.((.....(((((.((.((....((((((((((......)))))))))).......(((.((......)).))).....)))))))))......)).))............. ( -31.30)
>DroYak_CAF1 117021 120 - 1
GAAAGACCUUGAUUUUGAUUGCCUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGCACUCCACAAAGAUCGAGAAUGCAGCAAUCUCUACGCUUGGAACUGCUAUUCAU
(((....(((((((((((.(((..((.....((((((((((......)))))))))).....)).))).))....))))))))).....((((...((((....))))..)))).))).. ( -33.80)
>consensus
AGAAGACCUUGAUUUUGAUUGACUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGAACUCCACAAAGAUCGAGAAUGCAGCAAUCUUUACGCGUGGAACUGCUAUUGAU
.......((((((((((..((......))..((((((((((......))))))))))................))).)))))))...((((...(((........))).))))....... (-29.87 = -29.87 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 15,493,445 – 15,493,565
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -29.93
Consensus MFE -27.05
Energy contribution -27.17
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.28
Structure conservation index 0.90
SVM decision value 0.81
SVM RNA-class probability 0.855318
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15493445 120 - 23771897
UGUGGCGACAUGAGACCUUUAAUUAAAUAUAACUUAUUAAAGAAGACCUUGAUUUUGAUUGACUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGAACUCCACAAUGAU
.(((((((........(((((((............)))))))......(..((....))..).))))))).((((((((((......))))))))))....................... ( -30.80)
>DroSec_CAF1 34661 120 - 1
UGUGGCUACAUGAGACGUUUAAUUAAAUAUAACUUAUUAGAGAAGACCUUGAUUUUGAUUGACUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGAACUCCACAAAGAU
.(((((..........((((..((.((((.....)))).))..)))).(..((....))..)...))))).((((((((((......))))))))))....................... ( -28.60)
>DroYak_CAF1 117061 120 - 1
UGUGGCGACAUGAGACCUUUAAUUAAAUAUAACUUAUUAGGAAAGACCUUGAUUUUGAUUGCCUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGCACUCCACAAAGAU
.((((((((....).....((((((((........((((((......))))))))))))))..))))))).((((((((((......))))))))))....................... ( -30.40)
>consensus
UGUGGCGACAUGAGACCUUUAAUUAAAUAUAACUUAUUAGAGAAGACCUUGAUUUUGAUUGACUUGCCACCGGGCUGAGCUAUAAAAAGCUUAGCCCACCACCACGAACUCCACAAAGAU
.(((((.....(((....(((((((((........(((((........)))))))))))))))))))))).((((((((((......))))))))))....................... (-27.05 = -27.17 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:30 2006