Locus 8558

Sequence ID 3R_DroMel_CAF1
Location 22,863,337 – 22,863,436
Length 99
Max. P 0.987436
window13751

overview

Window 1

Location 22,863,337 – 22,863,436
Length 99
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 74.76
Mean single sequence MFE -20.67
Consensus MFE -12.77
Energy contribution -13.45
Covariance contribution 0.68
Combinations/Pair 1.26
Mean z-score -2.31
Structure conservation index 0.62
SVM decision value 2.08
SVM RNA-class probability 0.987436
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22863337 99 + 27905053
CCCAGCUCCG----UUUCCA--CCUCCAUUCCCAUACCAUCCCAUCGGAUACGAUCCCAUCCCAAGCCAACUGCCGCAAAAUGAUUUGUGGCCUUAAGUGGAGCU
...(((((((----......--................((((....))))......................((((((((....))))))))......))))))) ( -22.80)
>DroSec_CAF1 9490 98 + 1
CCCAGCUGCA----UUUCCA--GCUCCAUUCCCAUAGCAUCCCAUCGGAUACGAUCCCAUC-CAUGCCAACUGCCGCAAAAUGAUUUGUGGCCUUAAGUAGAGCU
...(((((..----....))--)))..........(((........((((........)))-).(((.....((((((((....)))))))).....)))..))) ( -21.70)
>DroSim_CAF1 9523 98 + 1
CCCAGCUGCA----UUUCCA--GCUCCAUUCCCAUACCAUCCCAUCGGAUACGAUCCCAUC-CAUGCCAACUGCCGCAAAAUGAUUUGUGGCCUUAAGUGGAGCU
..........----.....(--((((((((............(((.((((........)))-))))......((((((((....))))))))....))))))))) ( -26.20)
>DroYak_CAF1 9545 93 + 1
CCCAGCUCCA----UUCCCA--GCUCCACUCCCA-----UCCCAUUGCAUCCGAUCCCAUC-CAUGCCAACUGCCGCAAAAUGAUUUGUGGCCUUAAGUGGAGCU
..........----.....(--((((((((....-----.......((((..(((...)))-.)))).....((((((((....))))))))....))))))))) ( -26.20)
>DroAna_CAF1 11360 75 + 1
CCCAGAUACA----UUACCA--GUACCAUUCCCAC-------------------UCC-----CAACCUAACUGCCGCAAAAUGAUUUGUGGCCUUAAGUGGAAGU
..........----......--...........((-------------------(.(-----((...(((..((((((((....)))))))).)))..))).))) ( -14.20)
>DroPer_CAF1 9869 85 + 1
CCCAUCUCCAUCCCUUCCCAAAACUUUAUUCCCA----------U---------UGCCUGC-CCUGCCAUCUGCCGCAAAAUGAUUUGUAGCCUUAAGUGGAAGG
............(((((((...............----------.---------.((....-...)).....((..((((....))))..)).....).)))))) ( -12.90)
>consensus
CCCAGCUCCA____UUUCCA__GCUCCAUUCCCAU____UCCCAUCGGAUACGAUCCCAUC_CAUGCCAACUGCCGCAAAAUGAUUUGUGGCCUUAAGUGGAGCU
.......................(((((((.............((((....)))).................((((((((....))))))))....))))))).. (-12.77 = -13.45 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:03 2006