Locus 318

Sequence ID 3R_DroMel_CAF1
Location 1,231,384 – 1,231,481
Length 97
Max. P 0.879055
window538 window539

overview

Window 8

Location 1,231,384 – 1,231,481
Length 97
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 90.85
Mean single sequence MFE -21.27
Consensus MFE -18.98
Energy contribution -18.87
Covariance contribution -0.11
Combinations/Pair 1.04
Mean z-score -2.25
Structure conservation index 0.89
SVM decision value 0.91
SVM RNA-class probability 0.879055
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1231384 97 + 27905053
UUGUACUU---AUUU---UCAGUCGAAUGCGUCAAUAGUGAAAUUGAAAUUGAUUUCUUCCUAGUAUGUGCAUCAAUUUCUCUACUACUUGACACUAUUGACA
(((.(((.---....---..))))))....((((((((((.....(((((((((..(..........)...)))))))))((........)))))))))))). ( -20.60)
>DroSec_CAF1 4828 103 + 1
UUGUACUUCUUCUUCUUAUCAGUCAAAGGCGUCAAUAGUGAAAUUUAAAUGGAUUUCUUCCGAGUAUGUGCAUCAAUUUCUCUACUACUUGACACUAUUGACA
.....................(((((.((.((((((((((..........(((.....)))(((...((......))..)))))))).))))).)).))))). ( -22.30)
>DroSim_CAF1 5034 100 + 1
UUGUACAUCUUCUUC---UCAGUCGAAUGCGUCAAUAGUGAAAUUUAAAUGGAUUUCUUCCGAGUAUGUGCAUCAAUUUCUCUACUACUUGACACUAUUGACA
..(((..((..((..---..))..)).)))((((((((((..........(((.....)))(((((.(((............))))))))..)))))))))). ( -20.90)
>consensus
UUGUACUUCUUCUUC___UCAGUCGAAUGCGUCAAUAGUGAAAUUUAAAUGGAUUUCUUCCGAGUAUGUGCAUCAAUUUCUCUACUACUUGACACUAUUGACA
..............................((((((((((((((((....)))))))...((((((.(((............)))))))))..))))))))). (-18.98 = -18.87 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,231,384 – 1,231,481
Length 97
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 90.85
Mean single sequence MFE -22.48
Consensus MFE -17.03
Energy contribution -17.37
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.34
Structure conservation index 0.76
SVM decision value 0.11
SVM RNA-class probability 0.586563
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1231384 97 - 27905053
UGUCAAUAGUGUCAAGUAGUAGAGAAAUUGAUGCACAUACUAGGAAGAAAUCAAUUUCAAUUUCACUAUUGACGCAUUCGACUGA---AAAU---AAGUACAA
.((((((.(((((((.((((.(((((((((((.................)))))))))....)))))))))))))))).)))...---....---........ ( -21.53)
>DroSec_CAF1 4828 103 - 1
UGUCAAUAGUGUCAAGUAGUAGAGAAAUUGAUGCACAUACUCGGAAGAAAUCCAUUUAAAUUUCACUAUUGACGCCUUUGACUGAUAAGAAGAAGAAGUACAA
.(((((..(((((((.((((.((((....((((.......((....))....))))....)))))))))))))))..)))))..................... ( -23.70)
>DroSim_CAF1 5034 100 - 1
UGUCAAUAGUGUCAAGUAGUAGAGAAAUUGAUGCACAUACUCGGAAGAAAUCCAUUUAAAUUUCACUAUUGACGCAUUCGACUGA---GAAGAAGAUGUACAA
.((((((((((....(((...((....))..)))......((....))...............))))))))))((((.(..((..---..))..))))).... ( -22.20)
>consensus
UGUCAAUAGUGUCAAGUAGUAGAGAAAUUGAUGCACAUACUCGGAAGAAAUCCAUUUAAAUUUCACUAUUGACGCAUUCGACUGA___GAAGAAGAAGUACAA
.((((((((((....(((...((....))..)))........(((.....)))..........)))))))))).............................. (-17.03 = -17.37 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:20 2006