Locus 4067

Sequence ID 2R_DroMel_CAF1
Location 13,435,700 – 13,435,805
Length 105
Max. P 0.935024
window6552

overview

Window 2

Location 13,435,700 – 13,435,805
Length 105
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 73.88
Mean single sequence MFE -21.66
Consensus MFE -17.52
Energy contribution -17.88
Covariance contribution 0.36
Combinations/Pair 1.06
Mean z-score -1.09
Structure conservation index 0.81
SVM decision value 1.24
SVM RNA-class probability 0.935024
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13435700 105 - 20766785
CACACCCUUCUCCUUUC--ACAGAAAUCAACCAAGCAACUACCCACCCACCAACGCAUUUGGCCACGAAAAGUGGCUUAAAGCGCGCUUAUAACUGUUGAGUGGUUU
.......((((......--..))))...(((((..((((..............(((.((.((((((.....)))))).)).)))...........))))..))))). ( -23.71)
>DroSec_CAF1 32899 88 - 1
CCCA------UCCUUUC--ACAGAAAUCAA-----------CCCACCCACCAACGCAUUUGGCCACGAAAAGUGGCUUAAAGCGCGCUUAUAACUGUUGAGUGGUUU
....------.......--...........-----------.....((((((((((.((.((((((.....)))))).)).))..(.......).)))).))))... ( -20.20)
>DroEre_CAF1 34592 99 - 1
CACACCC-----GCUUC--GCAGAAAUGAACCAAGCAACUACCCAGCCACCCACGUAUUU-GCCACGAAAAGUGGCUUAAAGCGCGCUUAUAACUGUUGAGUGGUUU
.....((-----((((.--((((..((((.....((.........))....(.(((.((.-(((((.....)))))..)).))).).))))..)))).))))))... ( -23.90)
>DroYak_CAF1 34508 93 - 1
-------------UUUCGCCCAGGAAUCAACCAAGCUACUGCCCAGCCACCCACGUAUUU-GCCACGAAAAGUGGCUUAAAGCGCGCUUAUAACUGUUGAGUGGUUU
-------------.........((......))((((((((...(((.....(.(((.((.-(((((.....)))))..)).))).).......)))...)))))))) ( -20.00)
>DroAna_CAF1 31565 83 - 1
UGCU--AACCUCCUUUA----------------------UGCGAACCCCCCCACGCACUCGGCCACGAAAAGUGGCUUAAAGCGCGCUUAUAACUGUUGAGUGGUUU
.(((--...........----------------------((((..........))))...((((((.....))))))...))).((((((.......)))))).... ( -20.50)
>consensus
CACA______UCCUUUC__ACAGAAAUCAACCAAGC_ACUACCCACCCACCCACGCAUUUGGCCACGAAAAGUGGCUUAAAGCGCGCUUAUAACUGUUGAGUGGUUU
.....................................................(((.((.((((((.....)))))).)).)))((((((.......)))))).... (-17.52 = -17.88 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:59 2006