Locus 2304

Sequence ID 3R_DroMel_CAF1
Location 6,552,020 – 6,552,111
Length 91
Max. P 0.513420
window3728

overview

Window 8

Location 6,552,020 – 6,552,111
Length 91
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 78.02
Mean single sequence MFE -25.70
Consensus MFE -14.05
Energy contribution -15.42
Covariance contribution 1.37
Combinations/Pair 1.25
Mean z-score -1.66
Structure conservation index 0.55
SVM decision value -0.04
SVM RNA-class probability 0.513420
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6552020 91 - 27905053
GAGCCUGUCACAUAAGCGCUUUAAUUGCGCGCCUUUUGAUGGG---AUCAUAAAAAGGGCAAACGAUCCGAAUCGGAAUUGUAUGUGAC--UCCAA
......(((((((..((((.......))))(((((((.(((..---..)))..)))))))..((((((((...))).))))))))))))--..... ( -29.80)
>DroVir_CAF1 42416 92 - 1
UCCUUUGCCACAUAAGCAGCUUAAUUGCGCGCCUUUUGAUGGCCGUCUCGUAAAAGAG----ACGAUAUGAAUCGGAAUCAAGUGUCGUUCAUCAA
(((...((((((.((((.((......))..).))).)).))))((((((......)))----))).........)))................... ( -23.20)
>DroSim_CAF1 28647 91 - 1
GAGCCCGUCACAUAAGCGCUUUAAUUGCGCGCCUUUUGAUGGG---AUCAUAAAAAGGGCAAACGAUCCGAAUCGGAAUUGUAUGUGCC--UCCAA
((.(((((((.....((((.......))))......)))))))---.)).......(((((.((((((((...))).)))))...))))--).... ( -31.90)
>DroEre_CAF1 31892 87 - 1
GAGCCUGACACAUAAGCGCUUUAAUUGCGCGCCUUUUGAUGGG---GUCAUAAAAAGGGCAAACGAUCCGAAUCGGAAUUGUAUGUGGC--U----
.((((..........((((.......)))).((((((.(((..---..))).))))))(((.((((((((...))).))))).))))))--)---- ( -26.90)
>DroYak_CAF1 30137 91 - 1
GAGCCUGUCACAUAAGCUCUUUAAUUGCGCGCCUUUUGAUGGG---AUCAUAAAAAGGGCAAACGAUCCGAAUCGGAAUUGUAUGUGGC--ACCAA
.....((((((((..(((((((...((....(((......)))---..))...)))))))..((((((((...))).))))))))))))--).... ( -25.70)
>DroMoj_CAF1 60004 92 - 1
UCCUUUGCCACAUAAGCGGCUUAAUUGCGCGCCUUUUGAUGGCCGCCUCGUAAAAAGC----ACGAUAUGAAUCAGAAUCGAGUGUCUUUCAUCAA
......((((((.(((((((......)).)).))).)).)))).(((((((.....))----..(((....)))......))).)).......... ( -16.70)
>consensus
GAGCCUGUCACAUAAGCGCUUUAAUUGCGCGCCUUUUGAUGGG___AUCAUAAAAAGGGCAAACGAUCCGAAUCGGAAUUGUAUGUGGC__ACCAA
........(((((..((((.......))))(((((((.((((.....))))..)))))))..((((((((...))).))))))))))......... (-14.05 = -15.42 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:07 2006