Locus 5130

Sequence ID 3L_DroMel_CAF1
Location 14,111,493 – 14,111,595
Length 102
Max. P 0.910584
window8122 window8123

overview

Window 2

Location 14,111,493 – 14,111,595
Length 102
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 77.54
Mean single sequence MFE -26.00
Consensus MFE -18.13
Energy contribution -18.30
Covariance contribution 0.17
Combinations/Pair 1.29
Mean z-score -1.32
Structure conservation index 0.70
SVM decision value 0.53
SVM RNA-class probability 0.771591
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14111493 102 + 23771897
------GU--UGGAUGAAAAAAUGGAAAUGUUGCUGCUCUAUUGAUUAUUGGAUAUUGAUUGCUG-GUGCUGCCUUUUAAUUCGAGGCAGGCAGCAACAAGCAGCCGCCAG
------..--(((.((.....((....))...(((((((((........))))..(((.((((((-...(((((((.......))))))).))))))))))))))))))). ( -29.90)
>DroVir_CAF1 110757 93 + 1
-----------GGAAAUGAAAAUGAAAAUGUUGUUGCUCUAUUGAUUAUUGCAUAUUGAUUGCUGUGUGGCUCUUUUUUA-UUGAGGCGAGCAGCGACAAAUAAA------
-----------.................(((((((((((.......(((.(((.......))).))).(.(((.......-..))).))))))))))))......------ ( -23.80)
>DroPse_CAF1 124922 89 + 1
------GU--UGG-----AAAAUGGAAAUGUUG---CUCUAUUGAUUAUUGGAUAUUGAUUGCUGUGCGCUGCCUUUUAAUGCGAGGCGAGCAGCAACAAGAAAC------
------..--...-----..........(((((---(((....(((((........)))))(((...(((...........))).))))))))))).........------ ( -20.50)
>DroEre_CAF1 108803 107 + 1
CAU---GUGCUGGAUGGAAAAAUGGAAAUGUUGCUGCUCUAUUGAUUAUUGGAUAUUGAUUGCUG-GUGCUGCCUUUUAAUUCGAGGCAGGCAGCAACAAGCAGCCGAAAG
..(---(.((((..(....)........(((((((((.(((..(((((........)))))..))-)..(((((((.......))))))))))))))))..)))))).... ( -31.50)
>DroAna_CAF1 111072 103 + 1
GAUGGUAU--CGGCUG-GAAAAUGGAAAUGUUGCUGCUCUAUUGAUUAUUGGAUAUUGAUUGCUG-GGGCUGCCUUUUAAUUCGAGGCAGGCAGCAACAAGC----GACAG
........--..(((.-....((....))((((((((((((..(((((........)))))..))-)).(((((((.......))))))))))))))).)))----..... ( -29.80)
>DroPer_CAF1 125939 89 + 1
------GU--UGG-----AAAAUGGAAAUGUUG---CUCUAUUGAUUAUUGGAUAUUGAUUGCUGUGCGCUGCCUUUUAAUGCGAGGCGAGCAGCAACAAGAAAC------
------..--...-----..........(((((---(((....(((((........)))))(((...(((...........))).))))))))))).........------ ( -20.50)
>consensus
______GU__UGGAUG__AAAAUGGAAAUGUUGCUGCUCUAUUGAUUAUUGGAUAUUGAUUGCUG_GUGCUGCCUUUUAAUUCGAGGCAAGCAGCAACAAGCAAC______
............................((((((((((.....(((((........))))).........((((((.......))))))))))))))))............ (-18.13 = -18.30 +   0.17)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,111,493 – 14,111,595
Length 102
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 77.54
Mean single sequence MFE -20.40
Consensus MFE -10.60
Energy contribution -11.27
Covariance contribution 0.67
Combinations/Pair 1.13
Mean z-score -2.28
Structure conservation index 0.52
SVM decision value 1.07
SVM RNA-class probability 0.910584
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14111493 102 - 23771897
CUGGCGGCUGCUUGUUGCUGCCUGCCUCGAAUUAAAAGGCAGCAC-CAGCAAUCAAUAUCCAAUAAUCAAUAGAGCAGCAACAUUUCCAUUUUUUCAUCCA--AC------
...(..((((((((((((((.((((((.........))))))...-)))))))...................)))))))..)...................--..------ ( -26.30)
>DroVir_CAF1 110757 93 - 1
------UUUAUUUGUCGCUGCUCGCCUCAA-UAAAAAAGAGCCACACAGCAAUCAAUAUGCAAUAAUCAAUAGAGCAACAACAUUUUCAUUUUCAUUUCC-----------
------......(((.(.((((((.(((..-.......))).).....(((.......)))...........))))).).))).................----------- ( -12.70)
>DroPse_CAF1 124922 89 - 1
------GUUUCUUGUUGCUGCUCGCCUCGCAUUAAAAGGCAGCGCACAGCAAUCAAUAUCCAAUAAUCAAUAGAG---CAACAUUUCCAUUUU-----CCA--AC------
------......((((((((((.((((.........)))))))((...)).......................))---)))))..........-----...--..------ ( -16.90)
>DroEre_CAF1 108803 107 - 1
CUUUCGGCUGCUUGUUGCUGCCUGCCUCGAAUUAAAAGGCAGCAC-CAGCAAUCAAUAUCCAAUAAUCAAUAGAGCAGCAACAUUUCCAUUUUUCCAUCCAGCAC---AUG
......((((((((((((((.((((((.........))))))...-)))))))...................)))))))..........................---... ( -25.60)
>DroAna_CAF1 111072 103 - 1
CUGUC----GCUUGUUGCUGCCUGCCUCGAAUUAAAAGGCAGCCC-CAGCAAUCAAUAUCCAAUAAUCAAUAGAGCAGCAACAUUUCCAUUUUC-CAGCCG--AUACCAUC
.((((----((((((((((((((((((.........))))))...-....................((....)))))))))))...........-.)).))--)))..... ( -24.00)
>DroPer_CAF1 125939 89 - 1
------GUUUCUUGUUGCUGCUCGCCUCGCAUUAAAAGGCAGCGCACAGCAAUCAAUAUCCAAUAAUCAAUAGAG---CAACAUUUCCAUUUU-----CCA--AC------
------......((((((((((.((((.........)))))))((...)).......................))---)))))..........-----...--..------ ( -16.90)
>consensus
______GUUGCUUGUUGCUGCCCGCCUCGAAUUAAAAGGCAGCAC_CAGCAAUCAAUAUCCAAUAAUCAAUAGAGCAGCAACAUUUCCAUUUU__CAUCCA__AC______
...........(((((((((.((((((.........))))))....)))))).)))....................................................... (-10.60 = -11.27 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:40 2006