Locus 3725

Sequence ID 3R_DroMel_CAF1
Location 10,117,479 – 10,117,580
Length 101
Max. P 0.664461
window5970

overview

Window 0

Location 10,117,479 – 10,117,580
Length 101
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.93
Mean single sequence MFE -28.56
Consensus MFE -18.25
Energy contribution -20.01
Covariance contribution 1.76
Combinations/Pair 1.04
Mean z-score -1.75
Structure conservation index 0.64
SVM decision value 0.28
SVM RNA-class probability 0.664461
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10117479 101 - 27905053
----------------UGGCUGUUGCCGGGUGUCUUUUGGCCAGGUCUUUCUUAAAUGCGGUUAAGCACUCCGGCUUCACAGCCACUUCCCCUCCACUUCACCACACUUCCC---AGGCC
----------------(((((((.(((((((((...((((((.................)))))))))).)))))...)))))))...........................---..... ( -29.63)
>DroSec_CAF1 26950 99 - 1
----------------UGGCUGUUGCCGGGUGUCUUUUGGCCAGGUCUUUCUUAAAUGCGGUUAAGCACUCCGGCUUCACAGCCACUUC--CUCCACUUCCCCCCACUUCCC---AGGCC
----------------(((((((.(((((((((...((((((.................)))))))))).)))))...)))))))....--.....................---..... ( -29.63)
>DroSim_CAF1 23220 99 - 1
----------------UGGCUGUUGCCGGGUGUCUUUUGGCCAGGUCUUUCUUAAAUGCGGUUAAGCACUCCGGCUUCACAGCCACUUC--CUCCACUUCCCCCCACUUCCC---AGGCC
----------------(((((((.(((((((((...((((((.................)))))))))).)))))...)))))))....--.....................---..... ( -29.63)
>DroEre_CAF1 26760 87 - 1
---------------UUGUCUGUUGCCGAGUGUCUUUUGGCCAGGUCUUUCCUAAAUGCGGUUAAGCACUCC---------UCCACUUC--CUCCACUUG-------CCCCCGGCGGGCC
---------------.........(((((((((...(((((((((.....)))......)))))))))))).---------........--.......((-------((...))))))). ( -20.30)
>DroYak_CAF1 27279 118 - 1
UUUGCCUGUGGCCUGUUGCCUGUUGCCAAGUGUCUUUUGGCCAGGUCUUUCUUAAAUGCGGUUAAGCACUCCGGCUUCACAGCCACUUC--CUCCACUUCUCAUCUCUCCCCAGCGGGCC
.........(((((((((((((..((((((.....))))))))))...........(((......)))....((((....)))).....--....................))))))))) ( -33.60)
>consensus
________________UGGCUGUUGCCGGGUGUCUUUUGGCCAGGUCUUUCUUAAAUGCGGUUAAGCACUCCGGCUUCACAGCCACUUC__CUCCACUUCCCCCCACUUCCC___AGGCC
................(((((((.(((((((((...((((((.................))))))))))).))))...)))))))........................((.....)).. (-18.25 = -20.01 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:30 2006