Locus 3141

Sequence ID 2R_DroMel_CAF1
Location 10,727,863 – 10,727,962
Length 99
Max. P 0.862254
window5176

overview

Window 6

Location 10,727,863 – 10,727,962
Length 99
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 80.67
Mean single sequence MFE -34.04
Consensus MFE -26.19
Energy contribution -25.36
Covariance contribution -0.83
Combinations/Pair 1.37
Mean z-score -1.85
Structure conservation index 0.77
SVM decision value 0.83
SVM RNA-class probability 0.862254
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10727863 99 - 20766785
CGACUGGCGCUGUCUGCAGGCAAAAAAGCAGUGGCCGUGGCCAAUGCAUCUUCCUCGUUCACCCCGAAAUCCAGUAAGAAGGCUGCAUCCGCUGCUAGU
..(((((((.((..(((((.(......(((.((((....)))).))).((((.((..(((.....)))....)).)))).).)))))..)).))))))) ( -35.00)
>DroGri_CAF1 73135 93 - 1
CGCUUAGCCCUGUCAGUGGGCAAGAAGGCUGUUGCCGCCGCU---CCGCCAUCCCAAUCGACACCCAAAGCAAGUAAAAAAGCGGCGGCAGCAGCU---
..(((.((((.......)))))))..((((((((((((((((---...................................))))))))))))))))--- ( -39.45)
>DroSec_CAF1 64711 99 - 1
CGACUGGCCCUGUCUGCAGGCAAAAAAGCAGUGGCCGUGGCCAAUGCAUCUUCCUCGUUCACUUCGAAAUCCAGUAAGAAGGCGGCAGCCGCUGCUAGU
......(((.((....))))).....(((((((((.((.(((......((((.((..(((.....)))....)).)))).))).)).)))))))))... ( -32.90)
>DroSim_CAF1 65002 98 - 1
CGACUGGCCCUGUCAGCAGGCAAA-AAGCAGUGGCCGUGGCCAAUGCAUCUUCCUCGUUCACUUCGAAAUCCAGUAAGAAGGCGGCAGCCGCUGCUAGU
......(((.((....)))))...-.(((((((((.((.(((......((((.((..(((.....)))....)).)))).))).)).)))))))))... ( -32.90)
>DroEre_CAF1 71643 96 - 1
CGACUGGCCCUGUCUGCAGGCAAAAAAGCAGUGGCCGUGGCCAAUGCAUCUUCCUCAUACACUCCUAAAUCCAGUAAAAAGGCG---GCCGCUGCUUCU
......(((.((....)))))....(((((((((((((.((....))..........(((.............))).....)))---)))))))))).. ( -29.82)
>DroYak_CAF1 66551 99 - 1
CGACUGGCCCUGUCUGCAGGCAAAAAGGCAGUGGCCGCGGCCAAUGCAUCAUCCUCAUACUCUCCUAAAUCCAGUAAAAAGGCGGCGGCCUCUGCUUCU
......(((.((....)))))....((((((.((((((.(((.(((...))).....((((...........))))....))).)))))).)))))).. ( -34.20)
>consensus
CGACUGGCCCUGUCUGCAGGCAAAAAAGCAGUGGCCGUGGCCAAUGCAUCUUCCUCAUUCACUCCGAAAUCCAGUAAAAAGGCGGCAGCCGCUGCUAGU
......((.(((....))))).....(((((((((.((.(((......................................))).)).)))))))))... (-26.19 = -25.36 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:28 2006