Locus 666

Sequence ID 3L_DroMel_CAF1
Location 1,982,661 – 1,982,757
Length 96
Max. P 0.519015
window1018

overview

Window 8

Location 1,982,661 – 1,982,757
Length 96
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 82.12
Mean single sequence MFE -29.58
Consensus MFE -17.74
Energy contribution -18.82
Covariance contribution 1.08
Combinations/Pair 1.10
Mean z-score -1.80
Structure conservation index 0.60
SVM decision value -0.03
SVM RNA-class probability 0.519015
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1982661 96 + 23771897
AGAGUCAAGAGUCCAGCAAAAAAGCUGCU-UCUUAAUCAGCUUGAAAACGCUGCCGUCACUGGGCACUCAAUCGC-AGAAAUGGCGAGUGGGUCCUGA
.((...(((((..((((......)))).)-))))...((((.(....).))))...))...(((.(((((.((((-(....).)))).)))))))).. ( -26.60)
>DroSec_CAF1 33630 89 + 1
------AAGAGACCAGCAAAAAAGCUGGU-UCUUAAUCAGCUUGAAUUUGCUGCCGUCACUG-GCACUCAAUCGC-AGAAAAGGCGAGUGGGUCCUGA
------.((.((((((((((.((((((((-.....))))))))...)))))))..))).))(-(.(((((.((((-.......)))).)))))))... ( -33.70)
>DroSim_CAF1 47869 96 + 1
AGAGCCAAGAGUCCAGCAAAAAAGCUGCUUUCUUAAUCAGCUUGAAUUCGCUGCCGUCACUG-GCACUCAAUCGC-AGAAAUGGCGAGUGGGUCCUGG
...((((((((..((((......))))..)))))...((((........))))........)-))(((((.((((-(....).)))).)))))..... ( -29.10)
>DroEre_CAF1 39472 79 + 1
-----------UCCAGCAG-AGAGCUGCU-UCUUAAUCAGCUUGAAUUUGCCGCCGUCACGG-GCACUCAACCGC-AGCAAUGGCGAGUGGGUA----
-----------((((((((-(((((((..-.......))))))...)))))((((((..(((-........))).-....))))))..))))..---- ( -23.60)
>DroYak_CAF1 34451 91 + 1
AGAGUCAUGGGUCCAGCAG-AAAGCUGCU-UCUUAAUCAGCUUGAAUUUGCUGCCGUCACUG-GCACUCAACCGCCAGAAAUGGCGAGUGGGGC----
..(((.((((...((((((-(((((((..-.......))))))...))))))))))).))).-((.((((..(((((....)))))..))))))---- ( -34.90)
>consensus
AGAG_CAAGAGUCCAGCAAAAAAGCUGCU_UCUUAAUCAGCUUGAAUUUGCUGCCGUCACUG_GCACUCAAUCGC_AGAAAUGGCGAGUGGGUCCUG_
.............((((((..((((((..........))))))....))))))............(((((.((((........)))).)))))..... (-17.74 = -18.82 +   1.08) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:01 2006