Locus 359

Sequence ID 3R_DroMel_CAF1
Location 1,394,175 – 1,394,276
Length 101
Max. P 0.580634
window592

overview

Window 2

Location 1,394,175 – 1,394,276
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 73.84
Mean single sequence MFE -29.00
Consensus MFE -18.83
Energy contribution -18.80
Covariance contribution -0.03
Combinations/Pair 1.16
Mean z-score -1.11
Structure conservation index 0.65
SVM decision value 0.09
SVM RNA-class probability 0.580634
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1394175 101 - 27905053
UUUGA----------------UUUUUU--AAAAGAGAAAACCCCAC-UUCAAAUGGGUACAAAGCGUCGCAACAUCGAGGAUGAGCUCUCACGCUUCGAGGCGGAGAUCUCGAAGCCCCC
.....----------------......--....((((....((((.-......))))..((...(.(((......))).).))...))))..(((((((((......))))))))).... ( -23.70)
>DroVir_CAF1 10411 116 - 1
UUUGAAUUUUUAUUGUUGACAUC---UCAACAAUAGCGUACGCCUU-UCGAAAUGGGCACAAAACGUCGCAAUAUCGAAGAUGAGCUCUCGCGCUUCGAAGCGGAGAUCUCUAAGCCGCC
..........(((((((((....---)))))))))(((...((.((-((((.((..((((.....)).)).)).))))))..(((.((((.((((....)))))))).)))...))))). ( -32.20)
>DroSim_CAF1 10001 101 - 1
UUUGA----------------UUUUUU--AAAAGAGCCAAACCCAU-UUAAAAUGGGUACAAAGCGUCGCAACAUCGAGGAUGAGCUCUCACGCUUCGAGGCGGAGAUCUCGAAGCCUCC
.....----------------......--...(((((((.((((((-.....))))))......(.(((......))).).)).)))))...(((((((((......))))))))).... ( -29.90)
>DroEre_CAF1 10868 112 - 1
UUUGAGAAUCU-UC----CAGUUUUCU--CAUAGCCCCAAACCUAU-GUUAAAUGGGUACAAAGCGUCGCAACAUCGAGGAUGAGCUCUCUCGCUUCGAGGCGGAGAUCUCGAAGCCUCC
...(((...((-((----.((...(((--(...((.....((((((-.....)))))).....))..(((....((((((.((((....)))))))))).))))))).)).)))).))). ( -33.40)
>DroYak_CAF1 9970 112 - 1
UCUGAGAAUCU-UC----AAGUUUUCU--AGUAGCCCCAAACCCAC-UUUAAAUGGGUACAAAGCGUCGGAACAUCGAGGAUGAGCUCUCACGCUUCGAGGCGGAGAUCUCGAAGCCUCC
((((((((...-..----.....))).--....((.....(((((.-......))))).....)).))))).....((((.((((.((((.((((....)))))))).))))...)))). ( -31.70)
>DroPer_CAF1 12620 110 - 1
UUUGAGAGUUA-AA----AAAUUAUUU-----AUCCAUUAAGAUAUCAAUAAAUGGGUACGAAACGUCGCAAUAUCGAGGACGAGCUGUCUCGCUUCGAAGCUGAGAUCUCCAAGCCCCC
((((.(((...-..----........(-----(((((((............))))))))......(((.((.(.((((((.((((....)))))))))).).)).))))))))))..... ( -23.10)
>consensus
UUUGAGA_U_U_U_____AA_UUUUUU__AAAAGACCCAAACCCAU_UUUAAAUGGGUACAAAGCGUCGCAACAUCGAGGAUGAGCUCUCACGCUUCGAGGCGGAGAUCUCGAAGCCUCC
......................................................((((......(.(((......))).)..(((.((((.((((....)))))))).)))...)))).. (-18.83 = -18.80 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:13 2006