Locus 5041

Sequence ID 3R_DroMel_CAF1
Location 13,267,950 – 13,268,061
Length 111
Max. P 0.910105
window8229

overview

Window 9

Location 13,267,950 – 13,268,061
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.46
Mean single sequence MFE -25.90
Consensus MFE -15.88
Energy contribution -16.84
Covariance contribution 0.96
Combinations/Pair 1.20
Mean z-score -1.85
Structure conservation index 0.61
SVM decision value 1.07
SVM RNA-class probability 0.910105
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13267950 111 + 27905053
GGCCAACUAUUGGCCCCUGCAGCGGAUUCGACCGCUGCACAGGGGGAAAUGUAUACAAACAAUUUUAGUUGAAAAUCAAUAUUUUUUUAAACUUAAUCCAGACAUUU-------AAAG--
(((((.....)))))((((((((((......)))))))..))).(((..(((......))).......(((((((........)))))))......)))........-------....-- ( -29.00)
>DroSec_CAF1 20623 119 + 1
GGCCAACUAUUGGCCCCUGCAGCGGAUUCGACCGCUGCACAGGGGGAAAUGUAUACAAACAAAUUCAGUUGAUAAAAAAUAUUU-UUUAAACUUAAUCCAGACAUUUAAAGAUUAGAUUA
...(((((.....((((((((((((......)))))))..)))))(((.(((......)))..)))))))).((((((....))-))))...((((((............)))))).... ( -28.90)
>DroSim_CAF1 20684 110 + 1
GGCCAACUAUUGGCCCCCUCAGUGGAUUCGACCGCUGCACAGGGGGAAAUUAAUACAAACAAAUUCAGUUGAUAAAAGAUAUUU-UUUAAACUUAUUCCAGAG-------GAUUAAAU--
......((.((((((((((((((((......))))))...))))))....................((((...((((....)))-)...))))....)))).)-------).......-- ( -25.60)
>DroEre_CAF1 22081 92 + 1
GGCCAACGAUUGGCCCCUGCAGCGCACUCGAC---UGCACAGAAGGAAAUGUAUGCAAGCAAAUUCCGUUGAUAAAUAAUAUUUGUCUAAACUUA-------------------------
(((((.....)))))..(((((((....)).)---)))).....((((.(((......)))..))))((((((((((...)))))))..)))...------------------------- ( -21.40)
>DroYak_CAF1 28818 97 + 1
GGGCAACUAUUGGCCCCUGCUGCGGAUUCGACCGCUGCACAGGGGGAAAUAUAUACAAACAAAUU-------------AUAUUU-UUUGAACUUAAUCCAGACAUUU-------AAGG--
((....)).((((((((((..((((......))))....))))))((((((((...........)-------------))))))-)...........))))......-------....-- ( -24.60)
>consensus
GGCCAACUAUUGGCCCCUGCAGCGGAUUCGACCGCUGCACAGGGGGAAAUGUAUACAAACAAAUUCAGUUGAUAAAAAAUAUUU_UUUAAACUUAAUCCAGACAUUU_______AAAG__
(((((.....)))))((((((((((......))))))).....))).......................................................................... (-15.88 = -16.84 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:51 2006