Locus 338

Sequence ID 3R_DroMel_CAF1
Location 1,287,768 – 1,287,883
Length 115
Max. P 0.760843
window563

overview

Window 3

Location 1,287,768 – 1,287,883
Length 115
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 77.32
Mean single sequence MFE -30.82
Consensus MFE -17.72
Energy contribution -17.33
Covariance contribution -0.39
Combinations/Pair 1.33
Mean z-score -1.76
Structure conservation index 0.57
SVM decision value 0.50
SVM RNA-class probability 0.760843
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1287768 115 - 27905053
GGAUGUGGAUAUAAAGGUGGUAGUGCCCGAGGGAAUUAUCUGCGCCUUCAGCAAAAGUGAGCCACAGACUAUGCUGUGGAAGUACAAGGUAAGUGGUGAUGGCUUUAAUAUUAAA
.......(((((.(((((((((((.((....)).))))))..((((....((....(((..((((((......))))))...)))...))....))))...))))).)))))... ( -29.90)
>DroVir_CAF1 29352 111 - 1
GGAUGUGGAUAUUAGAGUUGUAGUGCCAGAGGGCAUUAUAUGUGCAUUCAGCAAGAGUGAUCCGGAGCUGAUGCUCUGGAAGCAUCAGGUGAGUAAAAAAAA----AACAUUAUU
.(((((............(((((((((....)))))))))....(((((.....))))).((((((((....)))))))).)))))................----......... ( -33.70)
>DroSec_CAF1 58211 115 - 1
GGAUGUGGAUAUAAAGGUGGUAGUGCCCGAGGGAAUUAUCUGCGCCUUCAGCAAAAGUGAGCCACAGACGAUGCUGUGGAAGUACAAGGUAAGUGGUGAAGACUUUAACAUUAUA
.(((((.....(((((((((((((.((....)).)))))).))..(((((.((...(((..((((((......))))))...)))........)).))))).))))))))))... ( -29.60)
>DroSim_CAF1 55735 115 - 1
GGAUGUGGAUAUAAAGGUGGUAGUGCCCGAGGGAAUUAUCUGCGCCUUCAGCAAAAGUGAGCCACAGACGAUGCUGUGGAAGUACAAGGUAAGUGGUGAAGACUUUAACAUUAUA
.(((((.....(((((((((((((.((....)).)))))).))..(((((.((...(((..((((((......))))))...)))........)).))))).))))))))))... ( -29.60)
>DroWil_CAF1 41343 111 - 1
AGAUGUGGAUAUACGAGUGGUGGUGCCAGAGGGUAUAAUAUGUGCCUUCAGUAAAAGCGAUCCACAGAACAUUCUGUGGAAGUAUCAGGUAGGCUAUAAU---UCCAAAAUUC-A
.((..((((.......(((((..((((.((((((((.....)))))))).......((..((((((((....)))))))).))....)))).)))))...---))))....))-. ( -34.30)
>DroAna_CAF1 55302 110 - 1
GGAUGUGGAUAUUAAAGUGGUGGUCCCAGAGGGAGUCAUUUGUGCUUUCAGCAAGAGUGAUCCGAAGUCCAUGCUCUGGAAGUACAAGGUAAGU--UGGAGGCAUUAAU---CGA
.(((((((((.......(((.....)))...(((.((((((.(((.....))).)))))))))...))))...(((..(...(((...)))..)--..))))))))...---... ( -27.80)
>consensus
GGAUGUGGAUAUAAAAGUGGUAGUGCCAGAGGGAAUUAUCUGCGCCUUCAGCAAAAGUGAGCCACAGACGAUGCUGUGGAAGUACAAGGUAAGUGGUGAAGACUUUAACAUUAUA
.......................((((.(((((...........))))).......(((..((((((......))))))...)))..))))........................ (-17.72 = -17.33 +  -0.39) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:44 2006