Locus 5136

Sequence ID 3R_DroMel_CAF1
Location 13,519,779 – 13,519,872
Length 93
Max. P 0.931546
window8381

overview

Window 1

Location 13,519,779 – 13,519,872
Length 93
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 75.58
Mean single sequence MFE -14.72
Consensus MFE -10.85
Energy contribution -11.35
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 0.74
SVM decision value 1.21
SVM RNA-class probability 0.931546
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13519779 93 - 27905053
GCCGGAGGGGGAAGCGUGAGUGCACCCCAAUUAACCCACCUCAUACCCCUUCAACACACACACACACACACCUUCAACGACAUCACAUCACAU---
...(((((((..((.(((.((............)).)))))....))))))).........................................--- ( -16.70)
>DroSec_CAF1 4407 82 - 1
GCCGGAGGGGGAAGCGUGAGUGCACCCCAAUUAACCCACUUCAUACCCCUUCAACACACACAAACAC------UCAAAGACAU-----CACAU---
...(((((((.....(((.((............)).)))......)))))))...............------..........-----.....--- ( -15.70)
>DroSim_CAF1 3575 82 - 1
GCCGGAGGGGGAAGCGUGAGUGCACCCCAAUUAACCCACUUCAUACCCCUUCAACACACACACACAC------UCAACGACAU-----CACAU---
...(((((((.....(((.((............)).)))......)))))))...............------..........-----.....--- ( -15.70)
>DroEre_CAF1 4404 79 - 1
GCCGGAGGGGGAAGCGUGAGUGCACCCCAAUUAACCCACUUCAUAUCCCACAAACACA--A-CACAC------ACAACGACAU-----CACAU---
......((((...((....))...))))..............................--.-.....------..........-----.....--- ( -13.40)
>DroYak_CAF1 3691 83 - 1
GCCGGAGGGGGAAGCGUGAGUGCACCCCAAUUAACCCACUUCAUAACCCACACACACA--CUCACAC------ACCACGACAU-----CACAUCAA
......((((...((....))...))))..............................--.......------..........-----........ ( -13.40)
>DroMoj_CAF1 7775 71 - 1
ACCCGAGGGGGAAGCGUGAGUGCACA---CUAUA---UUUACAUACAGCUUCACUACACUCAGACAA------ACAUACUC----------AU---
....(((.((((((((((((((....---...))---))))).....))))).))...)))......------........----------..--- ( -13.40)
>consensus
GCCGGAGGGGGAAGCGUGAGUGCACCCCAAUUAACCCACUUCAUACCCCUUCAACACACACACACAC______ACAACGACAU_____CACAU___
......((((...((....))...)))).................................................................... (-10.85 = -11.35 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:14 2006