Locus 330

Sequence ID 3R_DroMel_CAF1
Location 1,259,897 – 1,259,988
Length 91
Max. P 0.614493
window553 window554

overview

Window 3

Location 1,259,897 – 1,259,988
Length 91
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 96.32
Mean single sequence MFE -25.17
Consensus MFE -24.40
Energy contribution -24.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.97
SVM decision value 0.16
SVM RNA-class probability 0.614493
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1259897 91 + 27905053
AUUAUGAAAGGGGUGGCAAUCCAUUAGUGUCCCUUUUCGGAUGGCAGACUGUAGCACCAAUUAGAGGUACAGCUGUCUUGUAAAAAAGAUG
....(((((((((..((.........))..)))))))))...(((((.(((((.(.(......).).)))))))))).............. ( -24.50)
>DroSec_CAF1 36747 90 + 1
AUUAAGAAAGGGGUGGCAAUCCAUUAGUGUCCCUUUUCGGAUGGCAGACUGUAGCCCCAAUUAGAGGUACAGCUGUCUUAUAAA-CAGAUG
.....((((((((..((.........))..))))))))....(((((.(((((.((.(.....).)))))))))))).......-...... ( -25.50)
>DroSim_CAF1 31408 90 + 1
AUUAAGAAAGGGGUGGCAAUCCAUUAGUGUCCCUUUUCGGAUGGCAGACUGUAGCCCCAAUUAGAGGUACAGCUGUCUUAUAAA-CAGAUG
.....((((((((..((.........))..))))))))....(((((.(((((.((.(.....).)))))))))))).......-...... ( -25.50)
>consensus
AUUAAGAAAGGGGUGGCAAUCCAUUAGUGUCCCUUUUCGGAUGGCAGACUGUAGCCCCAAUUAGAGGUACAGCUGUCUUAUAAA_CAGAUG
.....((((((((..((.........))..))))))))....(((((.(((((.(.(......).).)))))))))).............. (-24.40 = -24.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,259,897 – 1,259,988
Length 91
Sequences 3
Columns 91
Reading direction reverse
Mean pairwise identity 96.32
Mean single sequence MFE -20.81
Consensus MFE -19.94
Energy contribution -20.28
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.96
SVM decision value 0.16
SVM RNA-class probability 0.610079
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1259897 91 - 27905053
CAUCUUUUUUACAAGACAGCUGUACCUCUAAUUGGUGCUACAGUCUGCCAUCCGAAAAGGGACACUAAUGGAUUGCCACCCCUUUCAUAAU
.............((((.(..(((((.......)))))..).)))).......((((.(((.......(((....)))))).))))..... ( -18.61)
>DroSec_CAF1 36747 90 - 1
CAUCUG-UUUAUAAGACAGCUGUACCUCUAAUUGGGGCUACAGUCUGCCAUCCGAAAAGGGACACUAAUGGAUUGCCACCCCUUUCUUAAU
......-.......(.((((((((((((.....)))).))))).))).)....((((.(((.......(((....)))))).))))..... ( -21.91)
>DroSim_CAF1 31408 90 - 1
CAUCUG-UUUAUAAGACAGCUGUACCUCUAAUUGGGGCUACAGUCUGCCAUCCGAAAAGGGACACUAAUGGAUUGCCACCCCUUUCUUAAU
......-.......(.((((((((((((.....)))).))))).))).)....((((.(((.......(((....)))))).))))..... ( -21.91)
>consensus
CAUCUG_UUUAUAAGACAGCUGUACCUCUAAUUGGGGCUACAGUCUGCCAUCCGAAAAGGGACACUAAUGGAUUGCCACCCCUUUCUUAAU
..............(.((((((((((((.....)))).))))).))).)....((((.(((.......(((....)))))).))))..... (-19.94 = -20.28 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:35 2006