Locus 1174

Sequence ID 3R_DroMel_CAF1
Location 3,553,975 – 3,554,072
Length 97
Max. P 0.944975
window1923

overview

Window 3

Location 3,553,975 – 3,554,072
Length 97
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.77
Mean single sequence MFE -28.44
Consensus MFE -9.52
Energy contribution -10.12
Covariance contribution 0.60
Combinations/Pair 1.40
Mean z-score -2.13
Structure conservation index 0.33
SVM decision value 1.35
SVM RNA-class probability 0.944975
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3553975 97 - 27905053
AAAA-ACAGCGAAAAAGA-AA--AAUCUUUAAGUUUUUCUGCUAGGCAA---AGUGAUGUAGUUGGCA----------GGAGAAAUUCAGCCGUCUGGCA----AGCGGACUUCUC--UG
....-.(((.(((..(((-((--(((......))))))))(((((((..---(....)......(((.----------(((....))).)))))))))).----.......))).)--)) ( -25.40)
>DroSec_CAF1 12779 101 - 1
AAAAAAAUGCUAAAAAGG-AA--AAUAUUUAAGUUUUUCUCAUAGGCAAAGAAGUGACGGAGUUGGCA----------GGAGAAACUCAGCCGGCUGGCA----AGCGGACUUCGC--UG
.......((((....(((-((--(((......))))))))....)))).........(((((((.((.----------.(((...))).(((....))).----.)).))))))).--.. ( -26.60)
>DroSim_CAF1 13059 101 - 1
AAAAAACAGCUAAAAAGG-AA--AAUCUUUAAGUUUUUCUCCUAGGCAAAGAAGUGACGGAGUUGGCA----------GGAGAAACUCAGCCGGCUGGCA----AGCGGACUUCGC--UG
........(((....(((-((--(((......))))))))....)))..........(((((((.((.----------.(((...))).(((....))).----.)).))))))).--.. ( -25.50)
>DroEre_CAF1 17450 97 - 1
AAAA-ACAGCGAGAAAGGAAA--AAUCUUUAAGUUUUUCAGCUAGGCAA---AGUGAUGGAGUUGGCA----------GAGGAAACUGGGCCGGCUGGCA-----GCGGACUUUGC--CG
....-..(((.......((((--(((......))))))).))).(((((---(((..((.(((((((.----------.((....))..)))))))..))-----....)))))))--). ( -32.40)
>DroAna_CAF1 9153 113 - 1
GGAA-ACAGGAAAAAAGG-AAAGAAUCUUUAAGUUU-GCUUCUAGGA-A---AGCGCUCAAGAUGGCACGGCUUGGAUAGAAAAACUGUGCCGACUGAGAGCCUGGCGGACUUGGCUCUG
(...-.).(((...((((-(.....)))))((((((-(((.......-.---((.((((.((.((((((((.((........)).)))))))).))..)))))))))))))))...))). ( -32.30)
>consensus
AAAA_ACAGCGAAAAAGG_AA__AAUCUUUAAGUUUUUCUCCUAGGCAA___AGUGAUGGAGUUGGCA__________GGAGAAACUCAGCCGGCUGGCA____AGCGGACUUCGC__UG
.........................................................(((((((.((............(((...))).(((....)))......)).)))))))..... ( -9.52 = -10.12 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:49 2006