Locus 3354

Sequence ID 2L_DroMel_CAF1
Location 9,720,958 – 9,721,062
Length 104
Max. P 0.995486
window5317 window5318

overview

Window 7

Location 9,720,958 – 9,721,062
Length 104
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 66.82
Mean single sequence MFE -31.97
Consensus MFE -12.95
Energy contribution -18.20
Covariance contribution 5.25
Combinations/Pair 1.19
Mean z-score -3.69
Structure conservation index 0.41
SVM decision value 2.58
SVM RNA-class probability 0.995486
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9720958 104 + 22407834
ACCAA-------CUGAGUUUGCACGUUGGAAUCAGCUACAUGUUUAAUAUUUGAUCGUAUCGAACAUGCAUGCAUUGCUGCUUGCAUCGUGUAACCUCA----GCUUCAAGACAG
.....-------(((((.(((((((.((.((.((((..((((((..((((......))))..))))))........)))).)).)).))))))).))))----)........... ( -31.70)
>DroSec_CAF1 3310 109 + 1
ACCAACAUAGAGCUGAGUUUACACGGUG-AAUCAACUACAUGUUUAACAUUUGAUCGUAUCAAACAUGCAUGUAUUGCUG-UUGCACCGUGUAAACUCA----GCUUCAAGACAG
.........(((((((((((((((((((-((((((.(((((((......((((((...))))))...))))))))))..)-)).)))))))))))))))----))))........ ( -43.00)
>DroSim_CAF1 3307 98 + 1
ACCAACAUAGAGCUGAGUUUACACGUUG-AAUCAGCUACAUGUUUAAAAUUUGAUCGUAUCGAACAUGCAU------------GCACCGUGUAACCUCA----GCUUCAAGACAG
.........((((((((.((((((((((-...))))..(((((......((((((...))))))...))))------------)....)))))).))))----))))........ ( -26.40)
>DroEre_CAF1 3370 87 + 1
-----------ACUGAGUCUACACGAUG-AAUCAGCUGCAUGUUAGGCAUUUG---------------CACGCCUUGCUG-ACUUGGCGUCCAAGCCCAGUCAGUUUUCAGACAG
-----------.((((.((........)-).)))).....((((((((.....---------------...)))).((((-(((.(((......))).))))))).....)))). ( -26.80)
>consensus
ACCAA______GCUGAGUUUACACGUUG_AAUCAGCUACAUGUUUAACAUUUGAUCGUAUCGAACAUGCAUGCAUUGCUG_UUGCACCGUGUAACCUCA____GCUUCAAGACAG
.............((((((((((((.((.((.((((.((((((......(((((.....)))))...))))))...)))).)).)).))))))))))))................ (-12.95 = -18.20 +   5.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 9,720,958 – 9,721,062
Length 104
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 66.82
Mean single sequence MFE -33.63
Consensus MFE -13.20
Energy contribution -17.07
Covariance contribution 3.88
Combinations/Pair 1.21
Mean z-score -3.49
Structure conservation index 0.39
SVM decision value 2.24
SVM RNA-class probability 0.990868
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9720958 104 - 22407834
CUGUCUUGAAGC----UGAGGUUACACGAUGCAAGCAGCAAUGCAUGCAUGUUCGAUACGAUCAAAUAUUAAACAUGUAGCUGAUUCCAACGUGCAAACUCAG-------UUGGU
.........(((----((((....((((.((....((((......((((((((..(((........)))..))))))))))))....)).))))....)))))-------))... ( -29.60)
>DroSec_CAF1 3310 109 - 1
CUGUCUUGAAGC----UGAGUUUACACGGUGCAA-CAGCAAUACAUGCAUGUUUGAUACGAUCAAAUGUUAAACAUGUAGUUGAUU-CACCGUGUAAACUCAGCUCUAUGUUGGU
.........(((----(((((((((((((((...-((((......(((((((((((((........)))))))))))))))))...-)))))))))))))))))).......... ( -46.20)
>DroSim_CAF1 3307 98 - 1
CUGUCUUGAAGC----UGAGGUUACACGGUGC------------AUGCAUGUUCGAUACGAUCAAAUUUUAAACAUGUAGCUGAUU-CAACGUGUAAACUCAGCUCUAUGUUGGU
.........(((----((((.(((((((..((------------.((((((((..(............)..)))))))))).....-...))))))).))))))).......... ( -28.90)
>DroEre_CAF1 3370 87 - 1
CUGUCUGAAAACUGACUGGGCUUGGACGCCAAGU-CAGCAAGGCGUG---------------CAAAUGCCUAACAUGCAGCUGAUU-CAUCGUGUAGACUCAGU-----------
((((.((....((((((.(((......))).)))-)))..((((((.---------------...))))))..)).))))((((.(-(........)).)))).----------- ( -29.80)
>consensus
CUGUCUUGAAGC____UGAGGUUACACGGUGCAA_CAGCAAUGCAUGCAUGUUCGAUACGAUCAAAUGUUAAACAUGUAGCUGAUU_CAACGUGUAAACUCAGC______UUGGU
................((((.(((((((.((....((((......((((((((.((((........)))).))))))))))))....)).))))))).))))............. (-13.20 = -17.07 +   3.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:30 2006