Locus 1996

Sequence ID 2L_DroMel_CAF1
Location 5,412,127 – 5,412,228
Length 101
Max. P 0.976367
window3217

overview

Window 7

Location 5,412,127 – 5,412,228
Length 101
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 74.63
Mean single sequence MFE -28.12
Consensus MFE -12.62
Energy contribution -14.52
Covariance contribution 1.89
Combinations/Pair 1.22
Mean z-score -2.50
Structure conservation index 0.45
SVM decision value 1.77
SVM RNA-class probability 0.976367
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5412127 101 + 22407834
ACACUGUGCCCGCCCAU-----UACAAUAAUGGGCUGU-AAACACAGCUCGAACAAACA--AGAGUUGUACGUUAUGCAUACUGACAUAUGUGGGUU---GAAAUUCAGGAG
...(((.((((((((((-----((...)))))))).((-((..(((((((.........--.)))))))...))))(((((......))))))))).---......)))... ( -29.00)
>DroSec_CAF1 32094 96 + 1
ACACUGGGCCCGCCCAU-----UACAAUAAUGGGCUGU-AAACACAGCUCGAACAAACA--AGAGUUGUAUAUUAUG-----UGACAUAUGUGGGUU---GAAAUUCAGGAG
...((((((((((((((-----((...))))))))...-....(((((((.........--.)))))))........-----..........)))).---.....))))... ( -27.10)
>DroSim_CAF1 31455 96 + 1
ACACUGGGCCCGCCCAU-----UACAAUAAUGGGCUGU-AAGCAUAGCUCGAACAAACA--AGAGUUGUAUAUUAUG-----UGACAUAUGUGGGUU---GAAAUUCAGGAG
...((((((((((((((-----((...)))))))).((-((..(((((((.........--.)))))))...)))).-----..........)))).---.....))))... ( -26.10)
>DroEre_CAF1 30321 101 + 1
ACACUGGACCCGCCCAU-----UACAAUAAUGGGCUGU-AAACACAGCUCGAACAAACA--AGAGUUGUACGUUAUGUAUACCUACACAUGUGGGUU---GAAAUGCGGGAG
........(((((((((-----((...)))))))).((-((..(((((((.........--.)))))))...))))((((((((((....)))))).---...))))))).. ( -33.60)
>DroYak_CAF1 37910 101 + 1
ACACUGGACCCGCCCAU-----UACAAUAAUGGGCUGU-AAACACAGCUCGAACAAACA--AGAGUUGUACGUUAUGUAUACGUACAUAUGUCGAGU---AAAAUUCAGGAG
...(((((...((((((-----((...))))))))...-.......((((((.(((((.--...)))((((((.......))))))...))))))))---....)))))... ( -30.40)
>DroPer_CAF1 37966 99 + 1
----UGGCCACGCCCAGACUCCCCCAAUAACGGUCUGUUAAGCAGGGCGGUGACAAACUGUACAAUUGUAUAAAUCACAAAAUCACAC---------ACAGAAAUGAGUCAC
----......((((((((((...........)))))(.....).)))))(((((....(((((....)))))................---------.((....)).))))) ( -22.50)
>consensus
ACACUGGGCCCGCCCAU_____UACAAUAAUGGGCUGU_AAACACAGCUCGAACAAACA__AGAGUUGUACAUUAUG_AUACUGACAUAUGUGGGUU___GAAAUUCAGGAG
......(((((((((((............))))))........(((((((............))))))).......................)))))............... (-12.62 = -14.52 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:45 2006