Locus 5209

Sequence ID 3L_DroMel_CAF1
Location 14,361,250 – 14,361,349
Length 99
Max. P 0.845124
window8242

overview

Window 2

Location 14,361,250 – 14,361,349
Length 99
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 82.18
Mean single sequence MFE -24.78
Consensus MFE -19.22
Energy contribution -20.17
Covariance contribution 0.95
Combinations/Pair 1.13
Mean z-score -2.11
Structure conservation index 0.78
SVM decision value 0.77
SVM RNA-class probability 0.845124
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14361250 99 + 23771897
--------CAGGCCCUAAACU----CACCUGGUG---GUGGUGUAAAUUUGGCACACCUUUCACACCGCGUCUAAUAAAAUAUUUAUUACCAGCAGGGCUAAAAAAAACAACUG
--------..((((((.....----.....((((---(.(((((.........)))))...).))))((...((((((.....))))))...)))))))).............. ( -25.80)
>DroSim_CAF1 181113 99 + 1
--------CAGGCCCUAAACU----CACCUGGUG---GUGGUGUAAAUUUGGCACACCUUUCACACCGCGUCUAAUAAAAUAUUUAUUACCAGCAGGGCUAAAAAAAACAACUG
--------..((((((.....----.....((((---(.(((((.........)))))...).))))((...((((((.....))))))...)))))))).............. ( -25.80)
>DroEre_CAF1 184105 100 + 1
--------CAGGCCCUAAACU----CACCUGGUGG-GGUGGUGUAAAUUUGGCACACCUUUCACACCGCGUCUAAUAAAAUAUUUAUUACCAGCAGGGCUACA-AAAACAACUG
--------..((((((.....----.....(((((-((.(((((.........))))).))).))))((...((((((.....))))))...))))))))...-.......... ( -28.00)
>DroYak_CAF1 191561 101 + 1
--------CAGGCCCUAAACU----CACCUGGUGGUGGUGGUGUAAAUUUGGCACACCUUUCACACCGCGUCUAAUAAAAUAUUUAUUACCAGCAGGGCUAAA-AAAACAACUG
--------..((((((..((.----((((....))))))(((((.((...((....)).)).)))))((...((((((.....))))))...))))))))...-.......... ( -27.90)
>DroAna_CAF1 177311 100 + 1
ACCGUUCUCCGCUCCUAAGCU----CACCUGGCG---GUGGUGUAAAUUUUGCACACCUCUCACACAGCGUCUAAUAAAAUAUUUAUUACCUGCAG--CCAAA-----AUACUG
..........(((....))).----....(((((---(((.((((.....)))))))).........(((..((((((.....))))))..))).)--)))..-----...... ( -20.60)
>DroPer_CAF1 197928 99 + 1
A-------CUGUUCCCACGCCGCCAGUCCUGGCG---CUGGUGUAAAUUUUGCACACCUUUCACGCCGCGUCUAAUAAAAUAUUUAUUACCGUCAGGA----A-AAAAAUACUG
.-------...((((.(((((((((....)))))---..(((((.........))))).........)))).((((((.....))))))......)))----)-.......... ( -20.60)
>consensus
________CAGGCCCUAAACU____CACCUGGUG___GUGGUGUAAAUUUGGCACACCUUUCACACCGCGUCUAAUAAAAUAUUUAUUACCAGCAGGGCUAAA_AAAACAACUG
..........((((((..............((((.....(((((.........))))).....))))((...((((((.....))))))...)))))))).............. (-19.22 = -20.17 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:33 2006