Locus 2040

Sequence ID 2L_DroMel_CAF1
Location 5,504,806 – 5,504,903
Length 97
Max. P 0.658346
window3284

overview

Window 4

Location 5,504,806 – 5,504,903
Length 97
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 87.99
Mean single sequence MFE -24.02
Consensus MFE -17.81
Energy contribution -17.62
Covariance contribution -0.19
Combinations/Pair 1.15
Mean z-score -1.66
Structure conservation index 0.74
SVM decision value 0.26
SVM RNA-class probability 0.658346
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5504806 97 - 22407834
AUAUUCGUGAGGCACUCUUGUAGGGAUAUGCAGGAUAUGCGUGUCGCAAAAUAAUUUAAAAAGGGGCGAGGGA---------AAGGGUGUGAGACCAAUGGAAUUU
...(((((......(((((((.(.((((((((.....)))))))).)(((....)))........))))))).---------...(((.....))).))))).... ( -22.10)
>DroSec_CAF1 128440 106 - 1
AUAUUCGUGAGGCACUUUUGUAGGGAUAUGCAAGAUAUGCGUGUCGCAAAAUAAUUUGAAAAAGGGCAAGGGAAACAAGGGCAAGGGUGUGAGACCAAUGGAAUUU
.....(....)((((((((((.(.((((((((.....)))))))).).......................(....)....))))))))))................ ( -26.00)
>DroEre_CAF1 127038 96 - 1
AUAUUCGUGAGCCACUUUUGUAGGGAUAUGCAGGAUAUGCGUGUCGCAAAAUAAUUUGAA-AGGGGCGAGGGA---------AACGGUGUGAGACCCAAGGAAUUU
...(((.(..(((.(((((.....((((((((.....)))))))).((((....))))))-))))))..).))---------)..(((.....))).......... ( -23.50)
>DroYak_CAF1 133405 96 - 1
AUAUUCGUGAGCCACUUUGGGAGGGAUAUGCAGGAUAUGCGUGUCGCAAAAUAAUUUAAA-AGGGGCGAAGGC---------AACGGUGUGAGACCAAUGGAAUUU
.....(....)(((..((((..(.((((((((.....)))))))).).......((((..-.(..((....))---------..)....)))).)))))))..... ( -24.50)
>consensus
AUAUUCGUGAGCCACUUUUGUAGGGAUAUGCAGGAUAUGCGUGUCGCAAAAUAAUUUAAA_AGGGGCGAGGGA_________AACGGUGUGAGACCAAUGGAAUUU
..((((........(((((((.(.((((((((.....)))))))).).......(((....))).))))))).............(((.....)))....)))).. (-17.81 = -17.62 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:48 2006