Locus 135

Sequence ID 2L_DroMel_CAF1
Location 420,128 – 420,265
Length 137
Max. P 0.811916
window209 window210

overview

Window 9

Location 420,128 – 420,228
Length 100
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 78.08
Mean single sequence MFE -32.35
Consensus MFE -22.81
Energy contribution -22.87
Covariance contribution 0.06
Combinations/Pair 1.27
Mean z-score -1.20
Structure conservation index 0.70
SVM decision value 0.31
SVM RNA-class probability 0.684269
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 420128 100 - 22407834
GCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCUUCGUCCCCG---AUUGCAAU------AUCGAAAAACUUACGGUGACGGCGACAUCGUC
(((((((.(((((..((..(((((...))))).))..))))).)))))))...(((((((---((......------))))..........(....))).)))...... ( -35.70)
>DroSec_CAF1 60 106 - 1
GCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCUGCGUCCCCG---AUUGCAAAAUCAAAAUCGAAAAACUUACGGUGACGGCGACAUCGUC
(((((((.(((((..((..(((((...))))).))..))))).)))))))...(((((((---(((..........)))))..........(....))).)))...... ( -36.10)
>DroSim_CAF1 60 106 - 1
GCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCUGCGUCCCCG---AUUGCAAAAUCAAAAUCGAAAAACUUACGGUGACGGCGACAUCGUC
(((((((.(((((..((..(((((...))))).))..))))).)))))))...(((((((---(((..........)))))..........(....))).)))...... ( -36.10)
>DroEre_CAF1 60 100 - 1
GCAUAUUGUCCAAUACUUCCGGCUGAUGGCCAAGGCUUUGGAGGAUUUGCGGCGUCCCCG---AUUGCGAA------AUUGAAAAACUUACGGUGACGGCGACAUCGUC
(((.(((.(((((..(((..(((.....))).)))..))))).))).)))(..(((((((---(((....)------))))..........(....))).)))..)... ( -29.70)
>DroYak_CAF1 60 103 - 1
GCCAAUCGUCCAAUGCUUCCGCCCGAUGGCCGGGGCUUUGGAGGAUUUGCGGCGUCUGCGUAGUUUGCAAA------AUCGAAGAACUUACGGUGACGGCGACAUCGUC
((.((((.(((((.(((((.(((....))).))))).))))).)))).))(.((((..((((((((.....------......)))).))))..)))).)......... ( -38.70)
>DroMoj_CAF1 60 94 - 1
ACAAAUCAACAAUUUAACACGGAGGAUUGUCGUUAGUUUUGCAGAUUUGUUUUGAGUUCG---AUUU-----------UUA-GCAACUUACGGUGACGGCGACAUCAUC
(((((((..(((.(((((((((....)))).)))))..)))..)))))))..(((((((.---....-----------...-).)))))).(((((.(....).))))) ( -17.80)
>consensus
GCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCUGCGUCCCCG___AUUGCAAA______AUCGAAAAACUUACGGUGACGGCGACAUCGUC
(((((((.(((((......(((((...))))).....))))).)))))))........................................((....))(((....))). (-22.81 = -22.87 +   0.06) 

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 0

Location 420,162 – 420,265
Length 103
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 73.82
Mean single sequence MFE -34.87
Consensus MFE -20.10
Energy contribution -20.05
Covariance contribution -0.05
Combinations/Pair 1.40
Mean z-score -1.62
Structure conservation index 0.58
SVM decision value 0.65
SVM RNA-class probability 0.811916
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 420162 103 - 22407834
CACAAGUUGCAGCAGUGCGAAAGAAACCAUAGGACCCGCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCU--UCGUCCCCG---AUUGCA
...........(((((.(....)........((((..(((((((.(((((..((..(((((...))))).))..))))).))))))).--..))))...---))))). ( -37.00)
>DroVir_CAF1 86 103 - 1
UAUAAGGUUCACAAAUCCUAUGCAAAUAUUACUAUGUGCAAAUUAGCAAACAAUUGCUGGGGAUUGUCGCAAUUUUUGCAGAUUCGUUUUUUAAGUUCA---UUUU--
.....(..((...((((((.((((.(((....))).))))...((((((....))))))))))))...(((.....))).))..)..............---....-- ( -18.30)
>DroSec_CAF1 100 103 - 1
CACAUGUUGCGGCAGUGCGAAAGAUACCGUAAGACCCGCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCU--GCGUCCCCG---AUUGCA
......((((((.....(....)...))))))((((.(((((((.(((((..((..(((((...))))).))..))))).))))))).--).)))....---...... ( -36.80)
>DroSim_CAF1 100 103 - 1
CACAUGUUGCGGCAGUGCGAAAAAUAGCGUAAGACCCGCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCU--GCGUCCCCG---AUUGCA
....(((..(((...((((........)))).((((.(((((((.(((((..((..(((((...))))).))..))))).))))))).--).))).)))---...))) ( -35.90)
>DroEre_CAF1 94 103 - 1
CACAUGUUGCAGCAGUGCAAAACAAACCGUAGGACACGCAUAUUGUCCAAUACUUCCGGCUGAUGGCCAAGGCUUUGGAGGAUUUGCG--GCGUCCCCG---AUUGCG
......(((((....))))).......((((((((.((((.(((.(((((..(((..(((.....))).)))..))))).))).))))--..))))...---..)))) ( -32.80)
>DroYak_CAF1 94 106 - 1
CACAUGUUGCAGCAAUGCGCAAUAUACCGUAAGACCCGCCAAUCGUCCAAUGCUUCCGCCCGAUGGCCGGGGCUUUGGAGGAUUUGCG--GCGUCUGCGUAGUUUGCA
........(((....)))((((..(((.(((.(((((((.((((.(((((.(((((.(((....))).))))).))))).)))).)))--).)))))))))..)))). ( -48.40)
>consensus
CACAUGUUGCAGCAGUGCGAAACAAACCGUAAGACCCGCAAAUUGUCCAAUACUUCCGGCCGAUGGCCGCGGCUUUGGAGGAUUUGCU__GCGUCCCCG___AUUGCA
...........((((((((........))))......(((((((.(((((......(((((...))))).....))))).)))))))................)))). (-20.10 = -20.05 +  -0.05) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:27:05 2006