Locus 1560

Sequence ID 2L_DroMel_CAF1
Location 4,188,861 – 4,188,981
Length 120
Max. P 0.863388
window2515

overview

Window 5

Location 4,188,861 – 4,188,981
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.17
Mean single sequence MFE -38.52
Consensus MFE -28.42
Energy contribution -29.26
Covariance contribution 0.84
Combinations/Pair 1.27
Mean z-score -2.12
Structure conservation index 0.74
SVM decision value 0.84
SVM RNA-class probability 0.863388
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4188861 120 + 22407834
GAGCGAAUCGGCUCUAGACUCUUCUACAUAAAUCACAAGGAUGCCUACGACUGGCAAUCCGCUGUAGACUUCUGUCGUGACAUGGGUGGCUAUAUAGCCGCCAUCAAGGAUCAAGAGGAG
((((......))))....(((((((.(((...((((..(((((((.......))).))))......(((....))))))).)))(((((((....)))))))...........))))))) ( -43.70)
>DroSec_CAF1 2446 120 + 1
GAGCGAAUCGGCUCUAGACUCUUCUACAUAAACCACAAAGAUGCCUUCAACUGGCAAUCCGCUGUAGACUUCUGUCGUGGCAUGGGUGGCUAUAUAGCCGCCAUCAAGGAUCAAGAGGAG
((((......))))....(((((((................((((.......))))((((((..(.(((....))))..))...(((((((....))))))).....))))..))))))) ( -42.60)
>DroSim_CAF1 3288 120 + 1
GAGCGAAUCGGCUCCAGACUCUUCUACAUAAACCAUAAAGAUGCCUUCAACUGGCAAUCCGCUGUAGACUUCUGUCGUGGCAUGGGUGGCUAUAUAGCCGCCAUCAAGGAUCAAGAGGAG
((((......))))....(((((((................((((.......))))((((((..(.(((....))))..))...(((((((....))))))).....))))..))))))) ( -42.20)
>DroEre_CAF1 2756 120 + 1
GAGCGAAUCGGCUCUAGACUUUUCUACAUCAAUCGCAAGGAUGCAUACGAUUGGAAUUCCGCCGUACAAUACUGCCGCGACAUGGGUGGCUAUAUAGCCACCAUCAAAGAUCAAAUGGAG
((((......))))........((((((((...(....))))).....((((.((....(((.(((......))).))).....(((((((....))))))).))...))))...)))). ( -32.00)
>DroYak_CAF1 3315 120 + 1
GAGCGAAUCGGCACUAGAUUGUUCUACAUCAAUAACAACGAUGCACACGAUUGGAAUUCCGCCGUAGAGUACUGCCGCAAAAAGGGUGGCUAUAUAGCCGCCAUCAAAGAUAAAGAGGAG
(((((....(((....((((((....((((.........))))...))))))((....)))))((((....)))))))......(((((((....))))))).))............... ( -32.10)
>consensus
GAGCGAAUCGGCUCUAGACUCUUCUACAUAAAUCACAAAGAUGCCUACGACUGGCAAUCCGCUGUAGACUUCUGUCGUGACAUGGGUGGCUAUAUAGCCGCCAUCAAGGAUCAAGAGGAG
((((......))))....(((((((.......((((..(((...(((((..(((....))).)))))...)))...))))....(((((((....)))))))...........))))))) (-28.42 = -29.26 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:28 2006