Locus 673

Sequence ID 2R_DroMel_CAF1
Location 3,337,470 – 3,337,581
Length 111
Max. P 0.762151
window1188

overview

Window 8

Location 3,337,470 – 3,337,581
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.43
Mean single sequence MFE -32.22
Consensus MFE -13.17
Energy contribution -15.41
Covariance contribution 2.24
Combinations/Pair 1.27
Mean z-score -1.89
Structure conservation index 0.41
SVM decision value 0.50
SVM RNA-class probability 0.762151
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3337470 111 + 20766785
AGGCAGCAAAAAACGAGAAGGCCAGCUCCGAGCCCAAAAGUGACCAGGAA---------AGCAGCGAUGAGGAGGCCUCCACAUCGAAGGCUUUGUUGGUUUCUAAGCCGGAUUACCAAA
.(((...............((((......).)))....((.((((((.((---------(((..(((((.(((....))).)))))...))))).)))))).))..)))((....))... ( -37.50)
>DroSim_CAF1 12108 111 + 1
AGGCAGCAAAAAGCGAGAAAGCCAGCUCCAAGCCCAAAAGUGACCAGGAA---------AGCAGUGAUGAGGAGGCCUCCACAUCGAAGGCUUUGUUGGUUUCUAAGCCGGAUUACCAAA
.(((.((....(((..........)))....)).....((.((((((.((---------(((..(((((.(((....))).)))))...))))).)))))).))..)))((....))... ( -35.10)
>DroEre_CAF1 12477 111 + 1
AGGCUCCUAAAAGCGAGGAGAGCCGCUCCAAGCCCAAAAGUGACGCGGAA---------AGCAACGAUGAAGAAGCCUCCACAUCGAAGACUUCGUUGGUUUCAAAGCCGGAUUACCAAA
.((((.......(((.((((.....))))..((......))..))).(((---------(.((((((((..((....))..))))((.....)))))).))))..))))((....))... ( -27.70)
>DroYak_CAF1 12912 111 + 1
AGGCUGCAAAAAGUGAUGAAGGCAGCUUCAAGCCCAAAAGUGAUCAGGAA---------AGCAACGAUGAGGAGGCCUCCACAUCGAAGUCUUCGUUGGUUUCUAAGCCGGAAUACCAAA
.((((....(((.((((((((((.((((....((............)).)---------)))..(((((.(((....))).)))))..)))))))))).)))...))))((....))... ( -34.70)
>DroAna_CAF1 10933 114 + 1
AGACCGCUAAAAAGGAGAAACCCAAAUCGGAA---GAGAGCGAUCAGGAAUCGAGUGGAAGUAGCCAACUGGAGGCAUCAUCUUCAAAAU---CAGUGCUCUCGAAGCCGGAAUACAAGA
.((.((((.....((......))...((....---)).)))).)).((..((((((((......)))..((((((.....))))))....---.......)))))..))........... ( -26.10)
>consensus
AGGCAGCAAAAAGCGAGAAAGCCAGCUCCAAGCCCAAAAGUGACCAGGAA_________AGCAGCGAUGAGGAGGCCUCCACAUCGAAGGCUUCGUUGGUUUCUAAGCCGGAUUACCAAA
.(((.....(((.(((.((((((...(((.................)))...............(((((.(((....))).)))))..)))))).))).)))....)))........... (-13.17 = -15.41 +   2.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:16 2006