Locus 3607

Sequence ID 3L_DroMel_CAF1
Location 10,623,140 – 10,623,245
Length 105
Max. P 0.731996
window5621

overview

Window 1

Location 10,623,140 – 10,623,245
Length 105
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 78.85
Mean single sequence MFE -22.46
Consensus MFE -16.23
Energy contribution -17.37
Covariance contribution 1.14
Combinations/Pair 1.23
Mean z-score -1.29
Structure conservation index 0.72
SVM decision value 0.43
SVM RNA-class probability 0.731996
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10623140 105 - 23771897
AGAGUCCUUAGAGAGUCACUGGCGUAAAUGAGACAAUGCCGGUGAAUAAAGUGGG-AUGAACACUGGGAGAAAUACUUGUGAGCAAGAUGAGGGUACUUUGAAUAU
(((((((((......((((((((((..........))))))))))....((((..-.....))))..........((((....))))...)))).)))))...... ( -27.50)
>DroSec_CAF1 505430 99 - 1
AGAGUCCUUAGAGAGUCGCUGGCGUAAACGAGACAAUGCCGGUGAAUAAAGUGGG-AUGAACACUGGGAGAAA------UAAGGAAGACAGGGGUCCUUUGAACUU
((((((((((.....((((((((((..........))))))))))....((((..-.....))))........------)))))).(((....)))))))...... ( -25.60)
>DroSim_CAF1 507235 105 - 1
AGAGUCCUUAGAGAGUCGCUGGCGUAAACGAGACAAUGCCGGUGAAUAAAGUGGG-AUGAACACUGGGAAAAAUACUUAUAAGCAAGAUAAGGGUCCUUUAAACAU
...(((((.......((((((((((..........)))))))))).......)))-)).......((((......(((((.......)))))..))))........ ( -25.44)
>DroEre_CAF1 513122 100 - 1
AGAGUCCUUAGAGAGUCACUGGCGUAAACGAGACAAUGCCGGUGAAUAAAGCGGG-AUGAACACAGGGAAAAAUACUUUUAUGAAAGAUAAGGGUCCUAAA-----
...(((((.......((((((((((..........)))))))))).......)))-)).......((((......(((((((.....)))))))))))...----- ( -25.24)
>DroYak_CAF1 515571 100 - 1
AGAGUCCUUAGAGAGUCACUGGCGUAAACGAGACAAUGCUGCUGAAUAAUGCGGG-AGGAACACAGGGAAAAAUACUUUUAAAGAAGAUAGGGGUCCUUUG-----
....(((((.....(((.....((....)).)))....((((........)))))-))))....(((((....((((((....)))).))....)))))..----- ( -18.50)
>DroAna_CAF1 497676 85 - 1
AGAGUCCUUAGAGAGUCACUGGCGUAAACGAGACAAUGCCGUUGAAUGAAAUGAGAAUGCACACGAAGAAAAU--C---UAGG-----UCAGAGU-----------
...(.(((.(((...((...(((((..........)))))(((......)))...............))...)--)---))))-----.).....----------- ( -12.50)
>consensus
AGAGUCCUUAGAGAGUCACUGGCGUAAACGAGACAAUGCCGGUGAAUAAAGUGGG_AUGAACACUGGGAAAAAUACUU_UAAGCAAGAUAAGGGUCCUUUG_____
((..((((((.....((((((((((..........))))))))))....((((........)))).......................))))))..))........ (-16.23 = -17.37 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:05 2006