Locus 3792

Sequence ID X_DroMel_CAF1
Location 10,032,840 – 10,032,942
Length 102
Max. P 0.937847
window6229 window6230

overview

Window 9

Location 10,032,840 – 10,032,942
Length 102
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 79.94
Mean single sequence MFE -27.27
Consensus MFE -16.83
Energy contribution -18.17
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.48
Structure conservation index 0.62
SVM decision value 1.26
SVM RNA-class probability 0.937847
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10032840 102 + 22224390
AUGAAAACUGACAACAAGGACCUUUAUU-UCACAACGUAGGCCGUUGGAAAUGG--GAAAACAACGUUUAGCACUUUAAAGUGCAGUCAGUAUUGUACUAGCAUU
......((((((........(((..(((-((.(((((.....))))))))))))--).............(((((....))))).)))))).............. ( -26.20)
>DroSec_CAF1 1024 101 + 1
AUGAAGACUGACAACCAGGACCUUUAUU-CCACAACGUAGGCCGUUGGAAGUGGAAGAAAACAAGGUUUAGCACUUUAAAGUGCAGUCAGUAUCGUACCAG---U
((((..((((((.....(((((((..((-((((((((.....))))....))))))......))))))).(((((....))))).)))))).)))).....---. ( -30.90)
>DroYak_CAF1 1080 92 + 1
AUAAAGACUGUCAGCAAGGACCUUUGCUGCCACAACGUAGGCCGUAGAAAAUGG--UAAAACAUGGUUUGGCACUUUAAAAUGCAGUCAGUAU-----------U
.....((((((.((((((....))))))((((...(((..(((((.....))))--).....)))...))))..........)))))).....-----------. ( -24.70)
>consensus
AUGAAGACUGACAACAAGGACCUUUAUU_CCACAACGUAGGCCGUUGGAAAUGG__GAAAACAAGGUUUAGCACUUUAAAGUGCAGUCAGUAU_GUAC_AG___U
......((((((.....(((((..........(((((.....)))))....((........)).))))).(((((....))))).)))))).............. (-16.83 = -18.17 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,032,840 – 10,032,942
Length 102
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 79.94
Mean single sequence MFE -24.30
Consensus MFE -16.93
Energy contribution -16.60
Covariance contribution -0.33
Combinations/Pair 1.15
Mean z-score -1.88
Structure conservation index 0.70
SVM decision value 0.74
SVM RNA-class probability 0.837109
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10032840 102 - 22224390
AAUGCUAGUACAAUACUGACUGCACUUUAAAGUGCUAAACGUUGUUUUC--CCAUUUCCAACGGCCUACGUUGUGA-AAUAAAGGUCCUUGUUGUCAGUUUUCAU
...(((.(.((((((..(((((((((....)))))..............--..((((((((((.....))))).))-)))...))))..))))))))))...... ( -25.10)
>DroSec_CAF1 1024 101 - 1
A---CUGGUACGAUACUGACUGCACUUUAAAGUGCUAAACCUUGUUUUCUUCCACUUCCAACGGCCUACGUUGUGG-AAUAAAGGUCCUGGUUGUCAGUCUUCAU
.---.......((.((((((.(((((....)))))..((((...((((.((((((....((((.....))))))))-)).)))).....))))))))))..)).. ( -28.30)
>DroYak_CAF1 1080 92 - 1
A-----------AUACUGACUGCAUUUUAAAGUGCCAAACCAUGUUUUA--CCAUUUUCUACGGCCUACGUUGUGGCAGCAAAGGUCCUUGCUGACAGUCUUUAU
.-----------(((..(((((......((((((..((((...))))..--.))))))(((((((....)))))))((((((......)))))).)))))..))) ( -19.50)
>consensus
A___CU_GUAC_AUACUGACUGCACUUUAAAGUGCUAAACCUUGUUUUC__CCAUUUCCAACGGCCUACGUUGUGG_AAUAAAGGUCCUUGUUGUCAGUCUUCAU
..............((((((.(((((....)))))...........................(((((...((((....)))))))))......))))))...... (-16.93 = -16.60 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:41 2006