Locus 6140

Sequence ID 2R_DroMel_CAF1
Location 19,332,812 – 19,332,912
Length 100
Max. P 0.896588
window9833 window9834

overview

Window 3

Location 19,332,812 – 19,332,912
Length 100
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -27.20
Consensus MFE -23.73
Energy contribution -23.73
Covariance contribution 0.00
Combinations/Pair 1.08
Mean z-score -2.12
Structure conservation index 0.87
SVM decision value 0.44
SVM RNA-class probability 0.737045
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19332812 100 + 20766785
UUGUGGAGAUAUGAUUUCUACGAAAGUGCAGAUGUGAUCAAGCUUGCAUUUCGCUUGGCAACACACUCGUGAAUAACAAGUAUAUUCACACGAAUUCAAA
((((((((((...))))))))))(((((.(((((..(......)..))))))))))(....)......(((((((.......)))))))........... ( -24.80)
>DroSec_CAF1 10831 100 + 1
UUGUGAAGAUAUGGUUUCUAGGAAACGACAGAAGUGAUCAAGCUUGCAUUUCGCUUGGCAACACACUCGUGAAUAACGAGUGUAUUCACACGAGUUCAAA
.((((((........((((.(....)...))))((..((((((.........))))))..))((((((((.....)))))))).)))))).......... ( -28.40)
>DroSim_CAF1 10882 100 + 1
UUGUGAAGAUAUGGUUUCUAGGAAACGGCAGAAGUGAUCAAGCUUGCAUUUCGCUUGGCAACACACUCGUGAAUAACGAGUGUAUUCACACGAGUUCAAA
.((((((........((((.(....)...))))((..((((((.........))))))..))((((((((.....)))))))).)))))).......... ( -28.40)
>consensus
UUGUGAAGAUAUGGUUUCUAGGAAACGGCAGAAGUGAUCAAGCUUGCAUUUCGCUUGGCAACACACUCGUGAAUAACGAGUGUAUUCACACGAGUUCAAA
.((((((.........(((.(....)...))).((..((((((.........))))))..))((((((((.....)))))))).)))))).......... (-23.73 = -23.73 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,332,812 – 19,332,912
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -25.10
Consensus MFE -23.07
Energy contribution -22.63
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.23
Structure conservation index 0.92
SVM decision value 0.99
SVM RNA-class probability 0.896588
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19332812 100 - 20766785
UUUGAAUUCGUGUGAAUAUACUUGUUAUUCACGAGUGUGUUGCCAAGCGAAAUGCAAGCUUGAUCACAUCUGCACUUUCGUAGAAAUCAUAUCUCCACAA
..(((.....(((((((((((((((.....))))))))))...(((((.........))))).)))))(((((......)))))..)))........... ( -24.70)
>DroSec_CAF1 10831 100 - 1
UUUGAACUCGUGUGAAUACACUCGUUAUUCACGAGUGUGUUGCCAAGCGAAAUGCAAGCUUGAUCACUUCUGUCGUUUCCUAGAAACCAUAUCUUCACAA
..((((...((((((((((((((((.....)))))))))))..(((((.........)))))............(((((...)))))))))).))))... ( -25.30)
>DroSim_CAF1 10882 100 - 1
UUUGAACUCGUGUGAAUACACUCGUUAUUCACGAGUGUGUUGCCAAGCGAAAUGCAAGCUUGAUCACUUCUGCCGUUUCCUAGAAACCAUAUCUUCACAA
..((((...((((((((((((((((.....)))))))))))..(((((.........)))))............(((((...)))))))))).))))... ( -25.30)
>consensus
UUUGAACUCGUGUGAAUACACUCGUUAUUCACGAGUGUGUUGCCAAGCGAAAUGCAAGCUUGAUCACUUCUGCCGUUUCCUAGAAACCAUAUCUUCACAA
..........(((((((((((((((.....)))))))))))..(((((.........)))))......((((........))))...........)))). (-23.07 = -22.63 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:47 2006