Locus 6317

Sequence ID 3R_DroMel_CAF1
Location 16,501,076 – 16,501,216
Length 140
Max. P 0.869119
window10304 window10305

overview

Window 4

Location 16,501,076 – 16,501,195
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.00
Mean single sequence MFE -33.45
Consensus MFE -28.16
Energy contribution -29.10
Covariance contribution 0.94
Combinations/Pair 1.08
Mean z-score -1.91
Structure conservation index 0.84
SVM decision value 0.57
SVM RNA-class probability 0.783781
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16501076 119 + 27905053
CCAUCUUCCGGUGGAUUUCCCAU-UUGUUACGCAAUUCACUUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUGGCUGAUACUUUGUCGCAGCUGCUGUUCCGAUAAGGAUUCAUUCA
..(((..(((((((.....))..-.......((....(((.....(((((....)))))...))).....)))))))..))).((((((((.(((....))).))))))))......... ( -33.00)
>DroSec_CAF1 57350 120 + 1
CCAUCUUCCGGUGGAUAUUCCAUUUUGCUACGCAAUCCACUUUAAUACGCGAAAGUGGAAUCGUGUCUAAGCACUGGCUGAUACUUUGUCGCAGCUGCUGUUCCGAUAAGGAUUCAUCCA
(((((....)))))...........((((((((..((((((((........))))))))...))))...))))..((.(((..((((((((.(((....))).))))))))..))).)). ( -36.40)
>DroSim_CAF1 61375 119 + 1
CCAUCUUCCGGUGGAUAUUCCAU-UUGCUACGCAAUCCACUUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUGACUGAUACUAUGUCGCAGCUGCUGUUCCGAUUAGGAUUCAUCCA
(((((....))))).........-.......(.(((((.......(((((....)))))((((.(....(((((((...(((.....))).))).))))...)))))..))))))..... ( -31.60)
>DroEre_CAF1 58846 119 + 1
CCAUCUUCCGGUGGAUAUUCCAU-UUGUUACGCAAUCAACUUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUAGCUGAUACUUAGUCGCAGCUGCUGUUUCGAUAAGGAUUCAUCCA
...........(((((..(((..-.....................(((((....)))))....((((.(((((.((((((..((...))..)))))).))))).)))).)))...))))) ( -32.80)
>consensus
CCAUCUUCCGGUGGAUAUUCCAU_UUGCUACGCAAUCCACUUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUGGCUGAUACUUUGUCGCAGCUGCUGUUCCGAUAAGGAUUCAUCCA
(((((....)))))...........((((((((..((((((((........))))))))...))))...)))).(((.(((..((((((((.(((....))).))))))))..))).))) (-28.16 = -29.10 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 16,501,115 – 16,501,216
Length 101
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 94.55
Mean single sequence MFE -29.90
Consensus MFE -26.62
Energy contribution -27.00
Covariance contribution 0.38
Combinations/Pair 1.07
Mean z-score -1.92
Structure conservation index 0.89
SVM decision value 0.86
SVM RNA-class probability 0.869119
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16501115 101 + 27905053
UUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUGGCUGAUACUUUGUCGCAGCUGCUGUUCCGAUAAGGAUUCAUUCACUUUGUGAGUCUUUUCGAAGA
.....(((((....))))).(((((((..((((..(((((..((...))..)))))..))))..))))(((((((((.......)))))))))..)))... ( -30.90)
>DroSec_CAF1 57390 101 + 1
UUUAAUACGCGAAAGUGGAAUCGUGUCUAAGCACUGGCUGAUACUUUGUCGCAGCUGCUGUUCCGAUAAGGAUUCAUCCACUUUGUGAGUCUUUUCGAAGA
.......(((.((((((((((((.(((........))))))).((((((((.(((....))).)))))))).....))))))))))).............. ( -28.60)
>DroSim_CAF1 61414 101 + 1
UUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUGACUGAUACUAUGUCGCAGCUGCUGUUCCGAUUAGGAUUCAUCCACUUUGUGAGUCUUUUCGAAGA
.....(((((....)))))......(((.(((((((...(((.....))).))).))))....(((..(((((((((.......))))))))).))).))) ( -28.30)
>DroEre_CAF1 58885 101 + 1
UUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUAGCUGAUACUUAGUCGCAGCUGCUGUUUCGAUAAGGAUUCAUCCACUUUGCGAGACGUUUCGAAGA
.....(((((.(((((((((((.((((.(((((.((((((..((...))..)))))).))))).))))..)))...))))))))))).))........... ( -31.80)
>consensus
UUUAAUCCGCGAAAGUGGAAUCGUGUCUAAGCACUGGCUGAUACUUUGUCGCAGCUGCUGUUCCGAUAAGGAUUCAUCCACUUUGUGAGUCUUUUCGAAGA
.......(((.((((((((...((((....))))....(((..((((((((.(((....))).))))))))..)))))))))))))).............. (-26.62 = -27.00 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:33 2006