Locus 4018

Sequence ID 3R_DroMel_CAF1
Location 10,955,601 – 10,955,694
Length 93
Max. P 0.943532
window6436

overview

Window 6

Location 10,955,601 – 10,955,694
Length 93
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 70.95
Mean single sequence MFE -20.98
Consensus MFE -10.13
Energy contribution -11.52
Covariance contribution 1.39
Combinations/Pair 1.06
Mean z-score -2.01
Structure conservation index 0.48
SVM decision value 1.34
SVM RNA-class probability 0.943532
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10955601 93 - 27905053
AACACUCA-CCACCCAUAGUUGGUUGAUGCCCC-CUUUUUAC------------AUGAAACCAAAUUAAUACUUUGAUUUGGGACCAAGCGGAAAAUAUAUUUGAUU
.....(((-.((.(((....))).)).......-.((((..(------------.((...(((((((((....)))))))))...)).)..)))).......))).. ( -15.10)
>DroSec_CAF1 24979 93 - 1
AACACCCA-CCACCCAUAUUUGGGUGGUGCCCC-CUUUUUAC------------AUGGAGCCAAAUAAAUACUUUGAUUUAGGACCAAGCGGGAAAUAUAUUUGAUU
......((-(((((((....))))))))).(((-((......------------.(((..((((((.((....)).)))).)).))))).))).............. ( -23.81)
>DroSim_CAF1 33663 76 - 1
AACACCCA-CCAC-----------------CC-CCUUUUUAC------------AUGGAGCCAAAUUAAUACUUUGAUUUGGGACCAAGCGGAAAAUAUAUUUGAUU
........-....-----------------..-..((((..(------------.(((..(((((((((....)))))))))..))).)..))))............ ( -14.60)
>DroEre_CAF1 25599 98 - 1
UUCCCCCACCCACCCACAGUUGGGUGGCGCCC--CUUUUCACCAAAU-----GAAUGGAACCAAAUUAACACUUUGAUUUCGGCCAGGGCGGAAAAUAUAC--GACA
(((((((..(((((((....))))))).((((--(..((((.....)-----))).))....(((((((....))))))).)))..))).)))).......--.... ( -29.40)
>DroYak_CAF1 33371 103 - 1
UUCCCCCAUCCACCCACAGUUGGGUGGCGCCC--UUUUCCACCAAAUGAAAUGAAUGGAACCAAAUUAACACUUUGAUUUCGGCCAGAACGGAAAAUAUAC--CACA
((((.....(((((((....))))))).(((.--..(((((.((.......))..)))))..(((((((....))))))).)))......)))).......--.... ( -22.00)
>consensus
AACACCCA_CCACCCACAGUUGGGUGGCGCCC__CUUUUUAC____________AUGGAACCAAAUUAAUACUUUGAUUUCGGACCAAGCGGAAAAUAUAUUUGAUU
.....((..(((((((....))))))).................................(((((((((....))))))).)).......))............... (-10.13 = -11.52 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:57 2006