Locus 1316

Sequence ID 2L_DroMel_CAF1
Location 3,462,617 – 3,462,717
Length 100
Max. P 0.822931
window2155

overview

Window 5

Location 3,462,617 – 3,462,717
Length 100
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 77.80
Mean single sequence MFE -24.24
Consensus MFE -19.12
Energy contribution -18.16
Covariance contribution -0.96
Combinations/Pair 1.36
Mean z-score -1.47
Structure conservation index 0.79
SVM decision value 0.69
SVM RNA-class probability 0.822931
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3462617 100 + 22407834
UACAAAAA----------------UCAGAUUGUAGAAUGCUCCUAAAAGAUAUUUGGGAGUUGAUUUGAGUGGAAGUUGUUUGAGUGGGGGAAUAUAUAGCAUAACGAAACCACAA
........----------------((((((((......(((((((((.....)))))))))))))))))((((..((((((((.(((......))).))).)))))....)))).. ( -22.00)
>DroSec_CAF1 5219 95 + 1
------------------AAAUCCUCAGGUUGUAGAAUGCUCCUAAAAGAUAUUUGGGAGUUGAUUUAAGUGGAAGUUGCGUAUGUG---GAAUAUGUACCGCAACGUAACCAUAU
------------------...(((.(......((((..(((((((((.....)))))))))...)))).).))).(((((((.((((---(........))))))))))))..... ( -26.50)
>DroSim_CAF1 5222 113 + 1
UACAAGAAG---UCUAAGAAAUCCUCAGGUUGUAGAAUGCUCCUAAAAGAUAUUUGGGAGUUGAUUUGAGUGGAAGUUGCUUAAGUGGGGGAAUAUGUACCGCAACGAAACCAUAU
..((((...---((((...((((....)))).))))..(((((((((.....)))))))))...)))).((((..(((((....(((.(......).))).)))))....)))).. ( -24.30)
>DroEre_CAF1 5195 113 + 1
UAGAAAAUG---UCUGGGAAAUCCUCAGGAUGUAGAAUGCUCCUAAAAGAUACUUAGGAGCUGAUUUGAGUGGAAGUUGCUUGAGUAGACGAAUAUAUAACACAACGAAACCAUGA
.........---((((((.....))))))(((((....((((((((.......))))))))..(((..((..(...)..))..))).......))))).................. ( -23.70)
>DroYak_CAF1 5256 116 + 1
UACAGAAAGGGAAGUGGGAAAUCCUCAGGAUGUAGAAUGCUCCUAAAAGAUAUUUGGGAGUUCAUUUGAGUGGAAGUUGCUUGGGUAGAGGGAUAUAUAACACAACGAAACCAUAA
.............((((....(((((........((..(((((((((.....)))))))))))(((..((..(...)..))..))).)))))........(.....)...)))).. ( -24.70)
>consensus
UACAAAAAG_____U__GAAAUCCUCAGGUUGUAGAAUGCUCCUAAAAGAUAUUUGGGAGUUGAUUUGAGUGGAAGUUGCUUGAGUGGAGGAAUAUAUAACACAACGAAACCAUAA
................................((((..(((((((((.....)))))))))...)))).((((..((((((((.(((......))).))).)))))....)))).. (-19.12 = -18.16 +  -0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:30 2006