Locus 3870

Sequence ID 2R_DroMel_CAF1
Location 12,798,961 – 12,799,052
Length 91
Max. P 0.830645
window6251

overview

Window 1

Location 12,798,961 – 12,799,052
Length 91
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 76.76
Mean single sequence MFE -24.66
Consensus MFE -21.53
Energy contribution -21.25
Covariance contribution -0.28
Combinations/Pair 1.11
Mean z-score -1.09
Structure conservation index 0.87
SVM decision value 0.71
SVM RNA-class probability 0.830645
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12798961 91 + 20766785
GCCA---CCACCGCCC---------------CCCCCCAUUUCGCUUUCUUCUUCCUUCACUGACUGGUGGCUGCUGCAAUUUUAAUGAAGCUGCGGCAUGCGGCAAGCA
(((.---.((((((..---------------...........)).....((..........))..))))(((((((((.(((....)))..))))))).)))))..... ( -22.42)
>DroSec_CAF1 143100 88 + 1
GCCA---CCACCGCCC------------------CCCAUUUCGCUUUCUUCUUCCUUCACUGACUGGUGGCUGCUGCAAUUUUAAUGAAGCUGCGGCAUGCGGCAAGCA
(((.---.((((((..------------------........)).....((..........))..))))(((((((((.(((....)))..))))))).)))))..... ( -22.70)
>DroSim_CAF1 148265 85 + 1
GCCA---ACACCGCCC------------------CCCAUUUCGC---CUUCUUCCUUCACUGACUGGUGGCUGCUGCAAUUUUAAUGAAGCUGCGGCAUGCGGCAAGCA
(((.---.........------------------.......(((---(.((..........))..))))(((((((((.(((....)))..))))))).)))))..... ( -23.40)
>DroEre_CAF1 143998 104 + 1
GCCC---CCAUCGCCACCCCCUCUCCCCUCUCCCCACU--UCGCUUCCUUGUUCUUUCACUGACUGGUGGCUGCUGCAAUUUUAAUGAAGCUGCGGCAUGCGGCAAGCA
(((.---.....((((((....................--..((......))((.......))..))))))(((((((.(((....)))..)))))))...)))..... ( -24.60)
>DroYak_CAF1 149986 109 + 1
GCCACUGCCACUGCCACUGCCACCUCCCUCACCCCCCUUUUUGCCUUCUUGUUCUUUCACUGACUGGUGGCUGCUGCAAUUUUAAUGAAGCUGCGGCAUGCGGCAAGCA
((...((((.(((((...((((((....(((.............................)))..)))))).((.((............)).)))))).).)))).)). ( -27.85)
>DroAna_CAF1 132418 76 + 1
GCCA---CGCCCGG----------------------------GC--UUUUCUUCUUUUGCUGGUUGGUGGCUGCUGCAAUUUUAAUGAAGCUGCGGCAUGCGGCAAGCA
(((.---(((((.(----------------------------((--............))).)..))))(((((((((.(((....)))..))))))).)))))..... ( -27.00)
>consensus
GCCA___CCACCGCCC__________________CCCAUUUCGCUUUCUUCUUCCUUCACUGACUGGUGGCUGCUGCAAUUUUAAUGAAGCUGCGGCAUGCGGCAAGCA
(((......................................................((((....))))(((((((((.(((....)))..))))))).)))))..... (-21.53 = -21.25 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:04 2006