Locus 3384

Sequence ID 3R_DroMel_CAF1
Location 9,144,847 – 9,144,967
Length 120
Max. P 0.731831
window5435

overview

Window 5

Location 9,144,847 – 9,144,967
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.83
Mean single sequence MFE -36.90
Consensus MFE -28.78
Energy contribution -29.06
Covariance contribution 0.28
Combinations/Pair 1.21
Mean z-score -1.70
Structure conservation index 0.78
SVM decision value 0.43
SVM RNA-class probability 0.731831
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9144847 120 + 27905053
AAAAAGGUGACCGCAACAUGCAGGCAAUUAGGAAGAAGGUGGCCUCAGUUGCCGGAGUGCUGAUCAGCAUCAGGAGGGAAACCACCAAGAUGGCCAUCAGGAAAGUGGAAGACUGCAUGA
.....(....).....(((((((..............(((((((((........((.((((....)))))).((.((....)).))..)).)))))))..............))))))). ( -38.29)
>DroSec_CAF1 35787 120 + 1
AAAGUGGUGACCGCAACAUGCAGGCGAUUAGGAAGAAGGUGGCCUCAGUUGCCGGAGUGCUGAUUAGCAUCAGUAGGGAAACCACCAAGAUGGCCAUCAGGAAAGUAGAAGACUGCAUGA
...((((...))))..(((((((..............(((((((((...........(((((((....)))))))((....)).....)).)))))))..............))))))). ( -39.59)
>DroEre_CAF1 39857 120 + 1
AAAGUGGUGACCGCAACAUACAGGCGAUCAGGAAGAAUGUGGCCUCAGUUGCCGGAGUGGUGAACAACAUGAGCAGGGCAACCACCAAGAUGGCCAUCAGGAAAGUGGAAGACUGCAUGG
...(..((..((((.........(((.((.....)).)))((((((...(((((...((.....))...)).)))((....)).....)).)))).........))))...))..).... ( -29.90)
>DroYak_CAF1 33111 120 + 1
AAAGCGGUGAACGCAACAUGCAGGCAAUCAGAAGGAAGGUGGCCUCAGUUGCUGGAGUGCUGAACAACAUGACCAGGGCAACCACCAAAAUGGCCAUCAGGAAAGUGGAAGACUGCAUGA
...(((.....)))..(((((((....(((.......(((((((....(((.(((.((.(((..(.....)..))).))..))).)))...))))))).......)))....))))))). ( -38.04)
>DroAna_CAF1 31269 120 + 1
AGAGAGGGGAUCGCAGCAUGCAGGCGAUCAGGAAGAAGGUGGCCUCCGUAGCUGGAGCGCUGCACAGCAUGAGCAGGGCAACCACCAAAAGGGCCAUCAGGAAAGUGGAGGACUGCAUGA
........((((((.(....)..)))))).........(..(((((((((((......)))))...(.(((.((.((....)).((....))))))))........))))).)..).... ( -38.70)
>consensus
AAAGAGGUGACCGCAACAUGCAGGCGAUCAGGAAGAAGGUGGCCUCAGUUGCCGGAGUGCUGAACAGCAUGAGCAGGGCAACCACCAAGAUGGCCAUCAGGAAAGUGGAAGACUGCAUGA
...(((.....)))..(((((((....(((.......(((((((...((((.(((....)))..)))).......((....))........))))))).......)))....))))))). (-28.78 = -29.06 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:41 2006