Locus 8118

Sequence ID 3R_DroMel_CAF1
Location 21,817,112 – 21,817,213
Length 101
Max. P 0.705540
window13059

overview

Window 9

Location 21,817,112 – 21,817,213
Length 101
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 80.03
Mean single sequence MFE -28.59
Consensus MFE -20.18
Energy contribution -20.35
Covariance contribution 0.17
Combinations/Pair 1.10
Mean z-score -1.42
Structure conservation index 0.71
SVM decision value 0.36
SVM RNA-class probability 0.705540
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21817112 101 - 27905053
AGAGCAUCGUCAGCACACGAGAGGUGCGUGAGACGGUUGUAGGUGUAGGAUGGCGGAAGCCCUGUAAAUUAUGAUAUCCGUAGAUUAAGA--AUAAGUUCGGU
.((((((((((.((((.(....)))))....))))))....(((.(((((((((....)))..............)))).)).)))....--....))))... ( -27.83)
>DroSec_CAF1 87624 98 - 1
AGAGCAUCGUCAGCACUCGAGAGGUGCGUGAGACGGUUGUAGGUGUAGGAUGGCGGAAGCCCUGUAAAUUAUGAUAUCCGUAAAUUAAGA-----AGUUCGGU
.((((.((.(((((((.(....))))).))).(((((..(((.....((..(((....))))).....)))..)...)))).......))-----.))))... ( -28.20)
>DroSim_CAF1 87344 98 - 1
AGAGCAUCGUCAGCACUCGAGAGGUGCGUGAGACGGUUGUAGGUGUAGGAUGGCGGAAGCCCUGUAAAUUAUGAUAUCCGUAAAUUAAGA-----AGUUCGGU
.((((.((.(((((((.(....))))).))).(((((..(((.....((..(((....))))).....)))..)...)))).......))-----.))))... ( -28.20)
>DroEre_CAF1 93893 101 - 1
GAAGCAUCGUCAGCACUCGAGAGGUGCGUGAGACGGUCGUAGGUGUAGGAUGGCGGAAGCCCUGAAAAGUAUGAUAUCCGUAGAUAAAGA--AUAUUUUCACU
...((((((((.((((.(....)))))....)))))).)).((((..(((((((....)))((....))......))))..(((((....--.))))).)))) ( -27.80)
>DroYak_CAF1 84951 98 - 1
GUAGCAUCGUCAGCACUCUGGAGGUGCGUGAAACGGUUGUAGGUGUGGGAUGGCGGAAGCCCUGCA---UAUCAGAUCCGUAUAUUAGGA--AUAUGUUCGUU
...(((((..(((....)))..)))))....(((((..(((((((((.(..(((....))).).))---))))...(((........)))--.)))..))))) ( -30.80)
>DroMoj_CAF1 122929 98 - 1
GAAGCAUAGUCAGCACACGGGAUGUGCGCGAGACUGUGGUGGGUGUUGGAUGGCGAAAGCCCUAAAGGGA-A----UGCGAAUAUUAAUUUAAUCCUAUCAUU
.....((((((.((.(((.....))).))..))))))((((((.(((((((..((....(((....))).-.----..)).......)))))))))))))... ( -28.70)
>consensus
AGAGCAUCGUCAGCACUCGAGAGGUGCGUGAGACGGUUGUAGGUGUAGGAUGGCGGAAGCCCUGUAAAUUAUGAUAUCCGUAAAUUAAGA__AUAAGUUCGGU
...((((((((.(((((.....)))))....)))))).)).......(((((((....)))..............))))........................ (-20.18 = -20.35 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:57 2006