Locus 6404

Sequence ID 3R_DroMel_CAF1
Location 16,780,349 – 16,780,469
Length 120
Max. P 0.974542
window10444

overview

Window 4

Location 16,780,349 – 16,780,469
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.36
Mean single sequence MFE -50.42
Consensus MFE -42.74
Energy contribution -44.05
Covariance contribution 1.31
Combinations/Pair 1.08
Mean z-score -3.99
Structure conservation index 0.85
SVM decision value 1.73
SVM RNA-class probability 0.974542
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16780349 120 + 27905053
UCACGAAUCCGUCACCAUGCAUGACCAUUGUGGUCCGUCUGCCAUUCAUGGCGAGAAAAGACCCCCCGGCGGUCAUGCGGGUGGCGGGGGGCACACAUUUUAAUCAGUGCUCAAGUACAA
.......(((((((((.(((((((((.(((.((((..(((((((....)))).)))...))))...))).))))))))))))))))))((((((............))))))........ ( -53.90)
>DroSec_CAF1 12693 120 + 1
UCACGAACCCGUCAUCAUGCAUGACCAUUGUGGUCCGUCUGCCAUUCAUGGCGAGAAAAGACCCCCCGGCGGUCAUGUGGGUGGCGGGGGGCACACAUUUUAAUCAGUGCUCAAGUACAA
.......(((((((((.(((((((((.(((.((((..(((((((....)))).)))...))))...))).))))))))))))))))))((((((............))))))........ ( -51.70)
>DroSim_CAF1 14388 120 + 1
UCACGAACCCGUCACCAUGCAUGACCAUUGUGGUCCGUCUGCCAUUCAUGGCGAGAAAAGACCCCCCGGCGGUCAUGUGGGUGGCGGGGGGCACACAUUUUAAUCAGUGCUCAAGUACAA
.......(((((((((.(((((((((.(((.((((..(((((((....)))).)))...))))...))).))))))))))))))))))((((((............))))))........ ( -54.30)
>DroEre_CAF1 8562 111 + 1
UCACGAAACCGUCACCAGACAUGACCAUUGUAGUCCGUCUGCCAUUCAUGGCGAGAAAAGACCUCCCGGUGGUCAUGGGGGUGG---------CACAUUUUAAUCAGUGCUCAAGUACAA
..........((((((...(((((((((((..(((..(((((((....)))).)))...)))....)))))))))))..)))))---------)............((((....)))).. ( -41.80)
>consensus
UCACGAACCCGUCACCAUGCAUGACCAUUGUGGUCCGUCUGCCAUUCAUGGCGAGAAAAGACCCCCCGGCGGUCAUGUGGGUGGCGGGGGGCACACAUUUUAAUCAGUGCUCAAGUACAA
.......(((((((((.(((((((((.(((.((((..(((((((....)))).)))...))))...))).))))))))))))))))))..................((((....)))).. (-42.74 = -44.05 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:45 2006