Locus 2438

Sequence ID 2R_DroMel_CAF1
Location 8,773,617 – 8,773,722
Length 105
Max. P 0.532531
window4033

overview

Window 3

Location 8,773,617 – 8,773,722
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.39
Mean single sequence MFE -26.80
Consensus MFE -13.95
Energy contribution -15.87
Covariance contribution 1.92
Combinations/Pair 1.21
Mean z-score -1.74
Structure conservation index 0.52
SVM decision value -0.00
SVM RNA-class probability 0.532531
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8773617 105 - 20766785
------GCUAUCGCCUCCUCGGCGAUUAUGUGAUUAUAGACUCAAAUUCAA-------UUGAGUCAGGCAGAUAGUGGGUUUCAGAA-AUG-ACUCUUUAUAAUGCAUGUAGAUUGAAAC
------....(((((.....)))))((((((((((((((((((((......-------)))))))...........(((..(((...-.))-)..))))))))).)))))))........ ( -27.50)
>DroSec_CAF1 18112 105 - 1
------GCUAUCGCCUUCUCGGCGAUUAUGUGAUUAUAGACUCAAAUUCAA-------UUGAGUCAGGCAGAUAUUGGGUCUCAGAA-AUG-ACUCUUUAUAAUGCAUGUAGAUUGAAAC
------((.((((((.....))))))...))..((((((((((((......-------)))))))..(((.(((..(((((......-..)-))))..)))..))).)))))........ ( -29.80)
>DroSim_CAF1 18700 105 - 1
------GCUAUCGCCUCCUCGGCGAUUAUGUGAUUAUAGACUCAAAUUCAA-------UUGAGUCAGGCAGAUAGUGGGUCUCAGAA-AUG-ACUCUUUAUAAUGCAUGUAGAUUGAAAC
------....(((((.....)))))((((((((((((((((((((......-------)))))))...........(((((......-..)-))))..)))))).)))))))........ ( -29.70)
>DroEre_CAF1 20370 105 - 1
------ACUAUCGCCUCCUCGGCGAUUAUGUGAUUAUAGACUCAGGUUCAA-------UUGAGUCAGACUGAUAGCGGGUCUCAAAA-AAU-ACUCAUCAUAAGGCACGUAGAUUGAAAC
------....(((((.....)))))(((((((.((((.(((((((......-------)))))))(((((.......))))).....-...-.......))))..)))))))........ ( -27.60)
>DroYak_CAF1 20569 105 - 1
------GCUAUCGCCUCCUCGGCGAUUAUGUGAUUAUAGACUCAAAUUCAA-------UUGUGCCAGUCAGAUAGCGGGUCUCAAUAAUAG-ACUCUUUAUGAUACACAUC-AUUGAAAC
------...((((((.....)))))).(((((((((((((((...((....-------..))...)))).......((((((.......))-))))..)))))).))))).-........ ( -24.80)
>DroAna_CAF1 19934 112 - 1
AUUGUCGUUAUCGUCUUGUCGGCGAUUAUGUGUUUAGAGACUAAAAUGUAAACAAAGCUUCUGUCAAGUCGGAAGUGA---UAAGAA-ACCAAAACAUUAAGACGU---UUGAUUGAAA-
...((((....(((((((..(.........((((((.(........).))))))..(((((((......)))))))..---......-.......)..))))))).---.)))).....- ( -21.40)
>consensus
______GCUAUCGCCUCCUCGGCGAUUAUGUGAUUAUAGACUCAAAUUCAA_______UUGAGUCAGGCAGAUAGUGGGUCUCAGAA_AUG_ACUCUUUAUAAUGCAUGUAGAUUGAAAC
.........((((((.....))))))(((((((((((((((((((.............)))))))...........((((............))))..)))))).))))))......... (-13.95 = -15.87 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:07 2006