Locus 3555

Sequence ID 3L_DroMel_CAF1
Location 10,416,591 – 10,416,691
Length 100
Max. P 0.808227
window5545

overview

Window 5

Location 10,416,591 – 10,416,691
Length 100
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 75.50
Mean single sequence MFE -16.95
Consensus MFE -9.33
Energy contribution -10.00
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.55
SVM decision value 0.64
SVM RNA-class probability 0.808227
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10416591 100 - 23771897
GGCAGCCUCGACUCAAUCGUCAACUCAUUGAGAUAUUGAUCUGCC-ACCCCCCCUCCUCGAUCCUC-GAUUCC-ACCGAUUUC---AUAUAUACAUAUAUACAAUU
(((((..((((((((((.(......)))))))...)))).)))))-.............((...((-(.....-..)))..))---.................... ( -15.80)
>DroPse_CAF1 313216 89 - 1
AGCAGCCUCGACUCAAUCGUCAACUCAUUGAGAUAUUGAUCUGGCUAUCC---CCGCUCUACCCCCCUCACCC-CCCUCUUUU---AGCCA----------GCUUU
(((........((((((.(......))))))).........((((((...---....................-........)---)))))----------))).. ( -12.98)
>DroSec_CAF1 287609 98 - 1
GGCAGCCUCGACUCAAUCGACAACUCAUUGAGAUAUUGAUCUGCC-ACC----CUCCUCGAUCC--GGGUUCC-CCCGAUUUCUAUAUACAUAUAUAUAUACAAUU
(((((..((((((((((.((....))))))))...)))).)))))-...----......((..(--(((....-))))...))((((((......))))))..... ( -21.80)
>DroEre_CAF1 298353 96 - 1
GGCAGCCUCGACUCAAUCGUCAACUCAUUGAGAUAUUGAUCUGCC-ACC----CUCCUCGAUCCUCCAGUUCC-CCGGAUUUCUAUAAACAUAUAUA----GCGUU
(((((..((((((((((.(......)))))))...)))).)))))-...----......(((((.........-..))))).(((((......))))----).... ( -18.00)
>DroYak_CAF1 300566 97 - 1
GGCAGCCUCGACUCAAUCGUCAACUCAUUGAGAUAUUGAUCUGCC-ACC----CUCCUCGAUCCUCAGGUUCCCCCAGAUUUCUAUAUACAUAUAUA----GAGUU
(((((..((((((((((.(......)))))))...)))).)))))-...----..(((.(.....))))...........((((((((....)))))----))).. ( -20.00)
>DroPer_CAF1 299833 88 - 1
AGCAGCCUCGACUCAAUCGUCAACUCAUUGAGAUAUUGAUCUGGCUAUCC---CCGCUCUACCCCGCUCUACC-CC-CCUUUC---AGCCA----------GCUUU
(((((((((((((((((.(......)))))))...))))...))))....---..((........))......-..-......---.....----------))).. ( -13.10)
>consensus
GGCAGCCUCGACUCAAUCGUCAACUCAUUGAGAUAUUGAUCUGCC_ACC____CUCCUCGAUCCUCCGGUUCC_CCCGAUUUC___AUACAUAUAUA____GAAUU
(((((..((((((((((.(......)))))))...)))).)))))............................................................. ( -9.33 = -10.00 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:53 2006