Locus 6366

Sequence ID 3L_DroMel_CAF1
Location 17,040,902 – 17,040,999
Length 97
Max. P 0.996001
window10200 window10201

overview

Window 0

Location 17,040,902 – 17,040,999
Length 97
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 78.36
Mean single sequence MFE -24.98
Consensus MFE -14.48
Energy contribution -14.73
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.58
SVM decision value 0.21
SVM RNA-class probability 0.633723
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17040902 97 + 23771897
GGGCCCUGUAAUUGGCCCGAAUGCAUUGCACACUGCACAUUGUCCAGUGCAAACU-------GCACAUUGCACAUUG-------CACAUUGCACAUCCAUUAUCCAUGAUC
(((((........)))))...((((.((((...((((...(((.((((....)))-------).))).))))...))-------))...)))).................. ( -28.50)
>DroSec_CAF1 8547 83 + 1
GGACCCUGUAAUUGGCCCGAAUGCAUUGCGCACUGCACAUU---------------------GCACAUUGCACAGAG-------CACACUGCACAUCCAUUAUCCAUGAUC
(((...((((....((.(...((((.((.(((........)---------------------)).)).))))..).)-------)....))))..)))............. ( -17.60)
>DroSim_CAF1 9573 83 + 1
GGGCCCUGUAAUUGGCCCGAAUGCAUUGCGCACUGCACAUU---------------------GCACAUUGCACAGAG-------CACACUGCACAUCCAUUAUCCAUGAUC
(((((........)))))...((((.((.((.(((.....(---------------------((.....)))))).)-------).)).)))).................. ( -23.30)
>DroYak_CAF1 9403 111 + 1
GGGCCCUGUAAUUGGCCCGAAUGCAUUGCGCAUUGCACACAGCACACAGCACACUGCACAUUGCACAUUGCAGAGGGCACACUGCACACUGCACAUCCAUUAUCCAUGAUC
(((((........)))))...((((.((.((..(((.....)))....)).)).))))...((((...(((((.(....).)))))...)))).................. ( -30.50)
>consensus
GGGCCCUGUAAUUGGCCCGAAUGCAUUGCGCACUGCACAUU_____________________GCACAUUGCACAGAG_______CACACUGCACAUCCAUUAUCCAUGAUC
(((((........)))))...((((.(((.....))).........................((.....))..................)))).................. (-14.48 = -14.73 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 17,040,902 – 17,040,999
Length 97
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 78.36
Mean single sequence MFE -36.20
Consensus MFE -20.58
Energy contribution -20.45
Covariance contribution -0.13
Combinations/Pair 1.08
Mean z-score -3.07
Structure conservation index 0.57
SVM decision value 2.64
SVM RNA-class probability 0.996001
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17040902 97 - 23771897
GAUCAUGGAUAAUGGAUGUGCAAUGUG-------CAAUGUGCAAUGUGC-------AGUUUGCACUGGACAAUGUGCAGUGUGCAAUGCAUUCGGGCCAAUUACAGGGCCC
...(((.....)))((.(((((.((..-------((.((..((.(((.(-------(((....)))).))).))..)).))..)).)))))))(((((........))))) ( -39.00)
>DroSec_CAF1 8547 83 - 1
GAUCAUGGAUAAUGGAUGUGCAGUGUG-------CUCUGUGCAAUGUGC---------------------AAUGUGCAGUGCGCAAUGCAUUCGGGCCAAUUACAGGGUCC
...(((.....)))((.(((((.((((-------(.(((..((......---------------------..))..))).))))).)))))))(((((........))))) ( -30.90)
>DroSim_CAF1 9573 83 - 1
GAUCAUGGAUAAUGGAUGUGCAGUGUG-------CUCUGUGCAAUGUGC---------------------AAUGUGCAGUGCGCAAUGCAUUCGGGCCAAUUACAGGGCCC
...(((.....)))((.(((((.((((-------(.(((..((......---------------------..))..))).))))).)))))))(((((........))))) ( -33.60)
>DroYak_CAF1 9403 111 - 1
GAUCAUGGAUAAUGGAUGUGCAGUGUGCAGUGUGCCCUCUGCAAUGUGCAAUGUGCAGUGUGCUGUGUGCUGUGUGCAAUGCGCAAUGCAUUCGGGCCAAUUACAGGGCCC
.............((((((((((.(.((.....)).).))))..((((((.((..((..(..(...)..)..))..)).))))))..))))))(((((........))))) ( -41.30)
>consensus
GAUCAUGGAUAAUGGAUGUGCAGUGUG_______CUCUGUGCAAUGUGC_____________________AAUGUGCAGUGCGCAAUGCAUUCGGGCCAAUUACAGGGCCC
...(((.....)))((.(((((...............((((((.((..(........................)..)).)))))).)))))))(((((........))))) (-20.58 = -20.45 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:40 2006