Locus 1156

Sequence ID 3R_DroMel_CAF1
Location 3,486,956 – 3,487,046
Length 90
Max. P 0.642515
window1899

overview

Window 9

Location 3,486,956 – 3,487,046
Length 90
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 66.14
Mean single sequence MFE -18.71
Consensus MFE -3.07
Energy contribution -4.18
Covariance contribution 1.11
Combinations/Pair 1.20
Mean z-score -2.51
Structure conservation index 0.16
SVM decision value 0.23
SVM RNA-class probability 0.642515
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3486956 90 + 27905053
GAAUACACACAGAGUCCCC-ACACUCUGUCACACAUUUUAGGUUCGCAUAUGUGUGUACAUGUGACGCCCAGGCGGCCUCCCCCUCCCUAC
.....((((((((((....-..)))))))(((((((.............))))))).....))).(((....)))................ ( -22.12)
>DroVir_CAF1 107164 73 + 1
GCACACACACACAUACCCUAGCAUUCGCACACACAUUCCGAGCUGUCCCA------CACAUGUUAGGCGCAUGU-AUC----------UA-
..........((((.(((((((((........(((........)))....------...)))))))).).))))-...----------..- ( -11.46)
>DroSec_CAF1 84523 73 + 1
GAAUACACACAGAGUCCCC-ACACUCUGUCAC-----------------AUGUGUGUACAUGUGCCGCCCAGGCGGCCUCCCCCUUCCUUC
(.(((((((((((((....-..)))))))...-----------------..)))))).)....(((((....))))).............. ( -23.40)
>DroSim_CAF1 108321 73 + 1
GAAUACACACAGAGUCCCC-ACACUCUGUCAC-----------------AUGUGUGUACAUGUGCCGCCCAGGCGGCCUCCCCCUCCCUUC
(.(((((((((((((....-..)))))))...-----------------..)))))).)....(((((....))))).............. ( -23.40)
>DroEre_CAF1 94092 83 + 1
GAAUACACACAGAGCACCC-ACACUCUGUCACACAUUUGAGGUCCGCACA------CACAUGUGCCACCCAUGU-GCCUCCCCCUCCCUAC
........((((((.....-...))))))..((((..((.(((..(((((------....))))).))))))))-)............... ( -17.90)
>DroYak_CAF1 149077 83 + 1
GAAUACACAAAGAGUCCCC-ACCCUCUGUCACACAUUUUAGGUACGCACA------CACAUGUGCCGCCCAUGU-GCCUCCCCCUUCCUAC
..........((((.....-...))))....(((((....(((..(((((------....))))).))).))))-)............... ( -14.00)
>consensus
GAAUACACACAGAGUCCCC_ACACUCUGUCACACAUUU_AGGU_CGCACA______CACAUGUGCCGCCCAGGC_GCCUCCCCCUCCCUAC
........((((((.........))))))..................................((.((....)).)).............. ( -3.07 =  -4.18 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:26 2006