Locus 5068

Sequence ID 3L_DroMel_CAF1
Location 13,893,473 – 13,893,569
Length 96
Max. P 0.654263
window8031

overview

Window 1

Location 13,893,473 – 13,893,569
Length 96
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 78.89
Mean single sequence MFE -29.22
Consensus MFE -15.98
Energy contribution -16.35
Covariance contribution 0.37
Combinations/Pair 1.39
Mean z-score -1.88
Structure conservation index 0.55
SVM decision value 0.25
SVM RNA-class probability 0.654263
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13893473 96 - 23771897
GAAGCGCCAAGCUACGGCCAGAAAUUCCAAAGAGCAGUAUCUUAUGGAACACUACGGCGCGGAGGGACUACCA-----------UCUAAUAAAGAGAACAAAGGAGA
...(((((..((....))......(((((((((......)))).)))))......)))))(((((.....)).-----------))).................... ( -25.50)
>DroSec_CAF1 2280 96 - 1
GAAGCGCAAAGCUACGGCCAGAAAUUCCAAGGAGCAGUAUCUUUUGGAACACUACGGCGCAGAGGGACUACCA-----------UCUCAUAAAGAGACAAAGGGAGA
...((((...((....))......(((((((((......)).))))))).......))))...((.....)).-----------((((.....)))).......... ( -23.30)
>DroSim_CAF1 2272 96 - 1
GAAGCGCCAAGCUACGGCCAGAAAUUCCAAGGAGCAGUAUCUUUUGGAACACUACGGCGCGGAGGGAUUACCA-----------UCUCAUAAAGAGACAAAGGGAGA
...(((((..((....))......(((((((((......)).)))))))......)))))...((.....)).-----------((((.....)))).......... ( -26.90)
>DroEre_CAF1 2301 93 - 1
GAAGCGGCAGGCUACGGCCAGAAAUUCCAAGGAGCAGUAUCUUUUGGAGCACUACGGUGCGGAGGGAUUACCU-----------UCCCAUAAAGAGACAAAUG---A
...((....(((....)))......((....)))).((.((((((((.((((....))))(((((.....)))-----------))))).))))).)).....---. ( -32.50)
>DroYak_CAF1 2292 93 - 1
GAAGCGACAGGCUACGGCCAGAAAUUCCAAGGAGCAGUAUCUUUUGGAGCACUACGGCGCGGAGGGAUUACCU-----------UCCCAUAAAGAGACAAAUG---A
...((....(((....)))......((....)))).((.((((((((.((.(....).))(((((.....)))-----------))))).))))).)).....---. ( -28.60)
>DroPer_CAF1 2212 105 - 1
GAAGCGUCUGGCCAGCGCCAGAAACAAGCGGGAGCAGUAUCUCCUCGACCACUACGGAGCCGAGGGACUGCCCAGCCUGGAUCAGCUCC--AAAACGCAGCUGUAGA
..(((.((((((....)))))).....(((((.(((((...((((((.((.....))...)))))))))))))....((((.....)))--)...))).)))..... ( -38.50)
>consensus
GAAGCGCCAAGCUACGGCCAGAAAUUCCAAGGAGCAGUAUCUUUUGGAACACUACGGCGCGGAGGGACUACCA___________UCUCAUAAAGAGACAAAUGGAGA
...(((((..((....))......(((((((((......)).)))))))......)))))...((.....))................................... (-15.98 = -16.35 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:11 2006