Locus 1769

Sequence ID 3R_DroMel_CAF1
Location 5,097,613 – 5,097,714
Length 101
Max. P 0.977498
window2904

overview

Window 4

Location 5,097,613 – 5,097,714
Length 101
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 76.89
Mean single sequence MFE -34.37
Consensus MFE -24.21
Energy contribution -25.58
Covariance contribution 1.38
Combinations/Pair 1.08
Mean z-score -2.12
Structure conservation index 0.70
SVM decision value 1.79
SVM RNA-class probability 0.977498
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5097613 101 - 27905053
AAG------AAGGUGGAGUCCGUCCUAGGCGUGACCACAGCCUCCUCCUCCUCCAUCAUCCCCUCCGGUGUCCGGUGCAGGACAAAAUGCCUUGAUUUAUUCCUUUA
..(------(.(((((((........((((((....)).)))).......))))))).))......(((((((......)))).....)))................ ( -23.66)
>DroSec_CAF1 4720 89 - 1
AAG------CAGGAGGAGUAGGUCCUAGGCGUGACCACAGCCUCCUCCUC------------CUCCGGUGUCCGGUGGAGGACGAGAUGCCUUGAUUUAUUCCUUUA
...------..(((((((((((((..((((((....))...(((.(((((------------(.((((...)))).)))))).)))..)))).))))))))))))). ( -43.80)
>DroSim_CAF1 4715 83 - 1
AAG------CAGGAGGAGUAGGUCCUAGGCGUGACCACAGCCUC------------------CUCCGGUGUCCGGUGCAGGACGAAAUGCCUUGAUUUAUUCCUUUA
...------..(((((((((((((..((((((........(((.------------------(.((((...)))).).))).....)))))).))))))))))))). ( -32.92)
>DroEre_CAF1 4667 105 - 1
GAGAUGGAGCAUAAGGAGGAGGUGUUAGGCGUGACCACAGCCUCGUCCUC-UCCUGCCCAUUC-CCGGUGUCCGGUGCAGGGCAAACUGCCUUGAUUUAUUCCUUUA
..(((((.(((..((((.(((((....((.....))...))))).)))).-...)))))))).-((((...))))..((((((.....))))))............. ( -37.10)
>consensus
AAG______CAGGAGGAGUAGGUCCUAGGCGUGACCACAGCCUCCUCCUC____________CUCCGGUGUCCGGUGCAGGACAAAAUGCCUUGAUUUAUUCCUUUA
...........(((((((((((((..((((((.......(((........................)))((((......))))...)))))).))))))))))))). (-24.21 = -25.58 +   1.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:51 2006