Locus 485

Sequence ID 3L_DroMel_CAF1
Location 1,364,029 – 1,364,178
Length 149
Max. P 0.807330
window720 window721

overview

Window 0

Location 1,364,029 – 1,364,143
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 87.87
Mean single sequence MFE -34.18
Consensus MFE -30.66
Energy contribution -30.33
Covariance contribution -0.33
Combinations/Pair 1.21
Mean z-score -1.61
Structure conservation index 0.90
SVM decision value 0.64
SVM RNA-class probability 0.807330
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1364029 114 - 23771897
UGUAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGACUUGGGAU---GCAGUAUCAAAAACAUUUUUAAG
((((.((.---((..(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....)))))))..)))).)---))).................... ( -33.90)
>DroSec_CAF1 19676 114 - 1
UGUAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGACUUGGGAU---GCAGAAUCAAAAACAGUUUCAAG
((((.((.---((..(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....)))))))..)))).)---))).................... ( -33.90)
>DroSim_CAF1 17008 114 - 1
UGUAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGACUUGGGAU---GCAGAAUCAAAAACAGUUUCAAG
((((.((.---((..(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....)))))))..)))).)---))).................... ( -33.90)
>DroEre_CAF1 20363 114 - 1
GACAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGACUUGGAAU---GCAACAUCGAAAACAUGUCCUAG
((((.(((---....(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....)))))))..)))...---...............)))).... ( -32.41)
>DroYak_CAF1 21068 114 - 1
UACAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGACUUGGGAU---GCAAUUUCGAGAACACGUCCAAG
........---....(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....)))))))((((..((---...))..))))............ ( -32.90)
>DroAna_CAF1 20655 120 - 1
UCUAGCAAAAAAGUUUCCCAUACCGGGAAUCGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGACUUGUGAUCAUGUCGCAUCCAUUUAGAUCACAAA
...............(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....))))))).(((((((((((.......)))...)))))))). ( -38.10)
>consensus
UGUAGCCA___UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAUAUGGGACUUGGGAU___GCAGAAUCAAAAACAGUUUCAAG
...............(((((((((((...((..((((((.....))))))..)).)))).....(((.....)))....)))))))(((((((....................))))))) (-30.66 = -30.33 +  -0.33) 

alignment

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secondary structure

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dotplot

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Window 1

Location 1,364,066 – 1,364,178
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.82
Mean single sequence MFE -26.98
Consensus MFE -20.09
Energy contribution -19.95
Covariance contribution -0.14
Combinations/Pair 1.06
Mean z-score -1.35
Structure conservation index 0.74
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1364066 112 - 23771897
UUUUCAAAAUAU---GUAAUUGUGUAUGGAA--AAAUACUUGUAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAU
............---...(((((.(((((..--...........((..---...(((((.....)))))((..((((((.....))))))..)))).((....))...))).)).))))) ( -27.00)
>DroSec_CAF1 19713 114 - 1
UUUUCAAAAUGU---GCAAUGGUGUAUGGAAAAAAAUAUUUGUAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAU
..........((---(..((((.((((((..(((....)))....)))---)))...)))).((((...((..((((((.....))))))..)).))))..........)))........ ( -29.10)
>DroSim_CAF1 17045 114 - 1
UUUUCAAAAUGU---GCAAUGGUGUAUGAAAAAAAAUAUUUGUAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAU
.........(((---((.(((((.((..((........))..))))))---)..(((((.....)))))((..((((((.....))))))..)))).((....))..........))).. ( -26.40)
>DroEre_CAF1 20400 100 - 1
UUUUCAAAAU-----------------AAAAAAAAAACUUGACAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAU
(((((.....-----------------...................((---...(((((.....))))).)).((((((.....)))))))))))..((....))............... ( -20.50)
>DroYak_CAF1 21105 110 - 1
UAUUCAAAAUGU---GU----GUACAUGUAAAAAAAACUUUACAGCCA---UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAU
......((((((---(.----((...((((((......))))))))))---)))))......((((...((..((((((.....))))))..)).))))..................... ( -26.60)
>DroAna_CAF1 20695 119 - 1
CUCGCAACAUAGCGAUUAAUUAAAGCUGGAA-CUAAUAACUCUAGCAAAAAAGUUUCCCAUACCGGGAAUCGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAU
.((((......)))).........((((((.-........))))))................((((...((..((((((.....))))))..)).))))..................... ( -32.30)
>consensus
UUUUCAAAAUGU___GUAAU_GUGUAUGGAAAAAAAUAUUUGUAGCCA___UAUUUCCCAUACCGGGAAUUGAACCCGGGCCUUCCGGGUGAGAGCCGGAUAUCCUAACCACUAGACAAU
............................................((........(((((.....)))))((..((((((.....))))))..)))).((....))............... (-20.09 = -19.95 +  -0.14) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:10 2006