Locus 2414

Sequence ID X_DroMel_CAF1
Location 6,457,863 – 6,457,955
Length 92
Max. P 0.927223
window3923 window3924

overview

Window 3

Location 6,457,863 – 6,457,955
Length 92
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 80.78
Mean single sequence MFE -23.05
Consensus MFE -15.18
Energy contribution -16.43
Covariance contribution 1.25
Combinations/Pair 1.06
Mean z-score -2.21
Structure conservation index 0.66
SVM decision value 1.18
SVM RNA-class probability 0.927223
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6457863 92 + 22224390
GAAUCAUUAUGCCCAGGUGACCCGACUCUGAUC---CCAUCUGAUCAGU-UUUGAGAUCUUGGGCAUUCCCUGUUGUCUUGCGCAUAAUUUGUAAA
((..((..(((((((((...(.(((..((((((---......)))))).-.))).)..)))))))))....))...))....(((.....)))... ( -24.90)
>DroSec_CAF1 12303 95 + 1
GAAUCAUUAUGCCCAGGUGACCCGACUCUGAUCAUUCCAUCUGAUCAGG-UUUAAGAUCUUGGGCAUUCCCUGUUGUCAUGCGCAUAAUUUGUAAA
((..((..(((((((((......(((.(((((((.......))))))))-))......)))))))))....))...))....(((.....)))... ( -26.80)
>DroEre_CAF1 11539 91 + 1
GAAUCAUUAUGCCCAUCUGAUCUAACU-UGAUC---CCAUCUGAUCCUCACCCCCGAUCGUGGGCAU-CCCCGUUGUCUUGUGCAUAAUUUGUAAC
.....(((((((.((...(((..(((.-.((((---((((..((((.........))))))))).))-)...)))))).)).)))))))....... ( -19.50)
>DroYak_CAF1 12490 80 + 1
GAAUCAUUAUGCCCAGGUGAUCCAACU-UGAUC---CCAUCUGAUCAAC-----------UGGGCAU-CCCCGUUGUCUUGUGCAUAAUUUGUAAC
.....(((((((.((((.((((.....-.))))---))....((.((((-----------.(((...-))).)))))).)).)))))))....... ( -21.00)
>consensus
GAAUCAUUAUGCCCAGGUGACCCAACU_UGAUC___CCAUCUGAUCAGC_UUU_AGAUCUUGGGCAU_CCCCGUUGUCUUGCGCAUAAUUUGUAAA
........(((((((((..........((((((.........))))))..........)))))))))...............(((.....)))... (-15.18 = -16.43 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 6,457,863 – 6,457,955
Length 92
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 80.78
Mean single sequence MFE -24.95
Consensus MFE -16.92
Energy contribution -17.93
Covariance contribution 1.00
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.68
SVM decision value 0.73
SVM RNA-class probability 0.835908
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6457863 92 - 22224390
UUUACAAAUUAUGCGCAAGACAACAGGGAAUGCCCAAGAUCUCAAA-ACUGAUCAGAUGG---GAUCAGAGUCGGGUCACCUGGGCAUAAUGAUUC
.......(((((((.((.(((....(((....)))..(((((((..-.((....)).)))---))))...)))((....)))).)))))))..... ( -27.40)
>DroSec_CAF1 12303 95 - 1
UUUACAAAUUAUGCGCAUGACAACAGGGAAUGCCCAAGAUCUUAAA-CCUGAUCAGAUGGAAUGAUCAGAGUCGGGUCACCUGGGCAUAAUGAUUC
.......(((((((.((.(......(((....)))..(((((...(-((((((((.......))))))).)).))))).).)).)))))))..... ( -28.60)
>DroEre_CAF1 11539 91 - 1
GUUACAAAUUAUGCACAAGACAACGGGG-AUGCCCACGAUCGGGGGUGAGGAUCAGAUGG---GAUCA-AGUUAGAUCAGAUGGGCAUAAUGAUUC
.......(((((((.((.......(((.-...)))..((((..((.(...((((......---)))).-).)).))))...)).)))))))..... ( -20.80)
>DroYak_CAF1 12490 80 - 1
GUUACAAAUUAUGCACAAGACAACGGGG-AUGCCCA-----------GUUGAUCAGAUGG---GAUCA-AGUUGGAUCACCUGGGCAUAAUGAUUC
.......(((((((.........(((((-((.((.(-----------.((((((......---)))))-).).))))).)))).)))))))..... ( -23.00)
>consensus
GUUACAAAUUAUGCACAAGACAACAGGG_AUGCCCAAGAUCU_AAA_GCUGAUCAGAUGG___GAUCA_AGUCGGAUCACCUGGGCAUAAUGAUUC
.......(((((((.((.(((....(((....))).............((((((.........)))))).)))((....)))).)))))))..... (-16.92 = -17.93 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:53 2006