Locus 1034

Sequence ID X_DroMel_CAF1
Location 3,020,444 – 3,020,564
Length 120
Max. P 0.748685
window1677

overview

Window 7

Location 3,020,444 – 3,020,564
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.50
Mean single sequence MFE -45.98
Consensus MFE -41.95
Energy contribution -42.33
Covariance contribution 0.37
Combinations/Pair 1.06
Mean z-score -1.53
Structure conservation index 0.91
SVM decision value 0.47
SVM RNA-class probability 0.748685
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3020444 120 - 22224390
AUCCCGGCGGACAUUCGCAGCUGUAGCCCGCUAUAGAGUCGUGACAGAUGCCACGAUUCCGGCAUGGUUGCGACUGACAGUCGUCUAUAUUGAUUUGACAUCGUGCGCCCGUAAAGCCCA
.....((((.((..((((((((((.(((.......((((((((........)))))))).)))))))))))))......((((((......)))..)))...)).))))........... ( -40.30)
>DroSec_CAF1 863 120 - 1
AGCCCGGCGGACACUCGCAGCUGUAGCCCGCUAUGGAGUCGUGGCAGAUGCCCCGAUUCCUGCAUGGCUGCGACUGACAGUCGUCUAUGUUGAUCUGACAUCGUGCGCCCGUGAAGCCCA
.....((((.((....((((.(((((((.((...(((((((.(((....))).))))))).))..))))))).))).).((((((......)))..)))...)).))))........... ( -47.60)
>DroEre_CAF1 881 120 - 1
AUCCUGGCGGACACUCGCAGCUGUAACCCGCUAUCGAGUCGUGGCAAAUGCCCCGAUUCCUGCACGGCUGCGACUGACAGUCGUCUAUAUUGAUCUGACAUCGUGCGCCCGUGAAGCCCA
.(((.((((.((..((((((((((.....((....((((((.(((....))).))))))..))))))))))))......((((((......)))..)))...)).)))).).))...... ( -45.20)
>DroYak_CAF1 809 120 - 1
AGCCCGGCGGACACUCGCAGCUGUAGCCCGCUAUCGAGUCGUGGCAGAUGCCACGAUUCCGGCAUGGCUGCGAUUGACAGUCGUCUAUGUUGAUCUGACAUCGUGCGCCCAUGAAGCCCA
.....((((.((....((((((((.(((.......((((((((((....)))))))))).)))))))))))(((..(((........)))..))).......)).))))........... ( -50.80)
>consensus
AGCCCGGCGGACACUCGCAGCUGUAGCCCGCUAUCGAGUCGUGGCAGAUGCCACGAUUCCGGCAUGGCUGCGACUGACAGUCGUCUAUAUUGAUCUGACAUCGUGCGCCCGUGAAGCCCA
.....((((.((..((((((((((.....((....((((((((((....))))))))))..))))))))))))......((((((......)))..)))...)).))))........... (-41.95 = -42.33 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:55 2006