Locus 4953

Sequence ID 3L_DroMel_CAF1
Location 13,706,280 – 13,706,380
Length 100
Max. P 0.728848
window7821

overview

Window 1

Location 13,706,280 – 13,706,380
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.88
Mean single sequence MFE -37.18
Consensus MFE -22.35
Energy contribution -24.22
Covariance contribution 1.86
Combinations/Pair 1.17
Mean z-score -1.58
Structure conservation index 0.60
SVM decision value 0.42
SVM RNA-class probability 0.728848
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13706280 100 - 23771897
GGCGACGCUGACGAGCACUGUAUAGUCUGUCAGUGGCCACUCACGG---CGGAUGCGUAAUGCGAACACGUAUACGCAGCGUUGGUCGCAACGGGUAAACACG-----------------
.((((((((((((..(........)..))))))).........(((---((..((((((.((((....)))))))))).))))))))))..............----------------- ( -36.60)
>DroSec_CAF1 113344 100 - 1
GGCGACGCUGACGAGCACUGUAUAGUCUGUCAGUGGCCACUCACGG---CGGAUGCGUAAUGCGAACACGUAUACGCAGCGUUGGUCGCAACGGGUAAACACG-----------------
.((((((((((((..(........)..))))))).........(((---((..((((((.((((....)))))))))).))))))))))..............----------------- ( -36.60)
>DroSim_CAF1 124226 100 - 1
GGCGACGCUGACGAGCACUGUAUAGUCUGUCAGUGGCCACUCACGG---CGGAUGCGUAAUGCGAACACGUAUACGCAGCGUUGGUCGCAACGGGUAAACACG-----------------
.((((((((((((..(........)..))))))).........(((---((..((((((.((((....)))))))))).))))))))))..............----------------- ( -36.60)
>DroEre_CAF1 119772 100 - 1
GGCGACUCUGACGAGCACUGUAUAGUCUGUCAGUGGCCACUCACGG---CGGAUGCGUAAUGCGAACACGUAUACGCAGCGUUGCCCUCAACGGGUAAACAGA-----------------
.((..(.((((((..(........)..)))))).)(((......))---)...((((((.((((....)))))))))))).((((((.....)))))).....----------------- ( -33.90)
>DroYak_CAF1 123265 103 - 1
GGCGACGCUGACGAGCACUGUAUAGUCUGUCAGUGGCCACUCACGGAUGCGGAUGCGUAAUGCGAACACGUAUACGCAGCGUUGCCCUCCACGGGUAAACACC-----------------
((((((((((.((.(((((((...((((((.(((....))).)))))))))).)))...(((((....))))).)))))))))))).......(((....)))----------------- ( -39.90)
>DroAna_CAF1 170749 113 - 1
GGCGAUGCUGACGAGCUCCAUGUCAUGUAACAGGGCUCGCUCGAGU---CCUGUGCGUCACAAGAACGUCAGUAA---CUGGUUACAUCAAGGGACAA-GACCAAAAAAACCGAACUAGU
.....((((((((..((...(((.(((((.((((((((....))))---))))))))).)))))..))))))))(---((((((........((....-..))..........))))))) ( -39.47)
>consensus
GGCGACGCUGACGAGCACUGUAUAGUCUGUCAGUGGCCACUCACGG___CGGAUGCGUAAUGCGAACACGUAUACGCAGCGUUGGCCGCAACGGGUAAACACG_________________
(((..((((((((..(........)..)))))))))))((((...........(((((.(((((....))))))))))..((((....))))))))........................ (-22.35 = -24.22 +   1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:51 2006