Locus 4495

Sequence ID 2L_DroMel_CAF1
Location 12,880,288 – 12,880,421
Length 133
Max. P 0.885925
window7068 window7069

overview

Window 8

Location 12,880,288 – 12,880,383
Length 95
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 83.25
Mean single sequence MFE -19.85
Consensus MFE -14.18
Energy contribution -14.84
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.20
Structure conservation index 0.71
SVM decision value 0.94
SVM RNA-class probability 0.885925
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12880288 95 + 22407834
---------UCCCAUCCCCUACUGGCUCUUUUGCUGCGCUGGAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUU
---------..(((........))).(((..((((((..((((....)))).)))).))..))).((((((((...((((......)))).))))))))..... ( -23.10)
>DroSec_CAF1 59395 94 + 1
---------UCCCAUC-CCUACUGGCUCUUUUGCUGCGCUCAAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUU
---------.......-.(((.(((((.....(((................)))))))).)))..((((((((...((((......)))).))))))))..... ( -20.09)
>DroSim_CAF1 62314 94 + 1
---------UCCCAUC-CCUACUGGCUCUUUUGCUGCGCUCAAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUU
---------.......-.(((.(((((.....(((................)))))))).)))..((((((((...((((......)))).))))))))..... ( -20.09)
>DroEre_CAF1 65250 81 + 1
---------CCCC--------------CUCUUGCUGCGCGGCAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUU
---------....--------------.(((.(((((..(....).......)))))....))).((((((((...((((......)))).))))))))..... ( -18.80)
>DroYak_CAF1 61585 94 + 1
---------CCCCAUU-CCUGCUGGCUCUUUUGCUUCGCGGGAACUUUUCAAGCAGCUAUUACAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACUAUU
---------.....((-(((((.(((......)))..))))))).....................((((((((...((((......)))).))))))))..... ( -24.10)
>DroAna_CAF1 81131 95 + 1
CACCCUUAACCCC----ACCACUUGUUCUUUUUCU-----GAAACUUUGCAAGCAGCCAUUAAAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUU
.............----....(((((.........-----........)))))............((((((((...((((......)))).))))))))..... ( -12.93)
>consensus
_________CCCCAUC_CCUACUGGCUCUUUUGCUGCGCUGAAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUU
................................(((((...............)))))........((((((((...((((......)))).))))))))..... (-14.18 = -14.84 +   0.67)

alignment

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secondary structure

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dotplot

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Window 9

Location 12,880,317 – 12,880,421
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 83.08
Mean single sequence MFE -23.78
Consensus MFE -15.85
Energy contribution -17.05
Covariance contribution 1.20
Combinations/Pair 1.17
Mean z-score -1.71
Structure conservation index 0.67
SVM decision value -0.05
SVM RNA-class probability 0.507642
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12880317 104 + 22407834
CUGGAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUUGUUGACUUUUCGACUUGAUGGCAGUGAUGGCGCACCCC
..((.............((((((((..((((((((...((((......)))).)))))))).....(((((....))))))))))))).(((....))).)).. ( -26.90)
>DroSim_CAF1 62342 104 + 1
CUCAAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUUGUUGACUUUUCGUCUUGAUGGCAGUGACGCAGCCCCCC
..........(((....((((((((..((((((((...((((......)))).))))))))........(((.....)))))))))))..)))........... ( -23.00)
>DroEre_CAF1 65265 102 + 1
CGGCAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUUGUUGACUUUUCCUCUUGAUGGCAGGAACGCAACCCC--
.(((..((.....))..))).......((((((((...((((......)))).)))))))).....((((....(((((((....)).)))))..))))...-- ( -23.10)
>DroYak_CAF1 61613 102 + 1
CGGGAACUUUUCAAGCAGCUAUUACAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACUAUUGUUGACUUUUCGUCUUGCUGGCAGGGACGCAGCCCC--
.(((.....(((..(((((....((((((((((((...((((......)))).))))))...)))))).(((.....)))..))).))..))).....))).-- ( -24.90)
>DroAna_CAF1 81162 101 + 1
--GAAACUUUGCAAGCAGCCAUUAAAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUUGUUGACUUUUCUUCUUAAUAGCGCGACUACACCCCU-C
--......(((((((((((.(((....((((((((...((((......)))).)))))))).))).)))).))).....((....)).))))..........-. ( -15.80)
>DroPer_CAF1 90957 101 + 1
---CAACUCUGCCAGAGGCCAUCAGAUUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUCACUUUUGUUGACUGUUCGUCUUGAUAAGAGGGCCAGGGCCCCGC
---.......(((...((((.........((((((...((((......)))).))))))..(((((((((((.....)))..))))))))))))..)))..... ( -29.00)
>consensus
C_GAAACUUUUCAAGCAGCCAUUAGAAUAAGUGCAAUAAUUAUAUCACUAAUGUGCACUUACAAUUGUUGACUUUUCGUCUUGAUGGCAGGGACGCAGCCCC_C
.................((((((((..((((((((...((((......)))).))))))))........(((.....)))))))))))................ (-15.85 = -17.05 +   1.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:10 2006