Locus 4688

Sequence ID 2R_DroMel_CAF1
Location 15,345,787 – 15,345,896
Length 109
Max. P 0.567004
window7548

overview

Window 8

Location 15,345,787 – 15,345,896
Length 109
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 79.55
Mean single sequence MFE -44.05
Consensus MFE -25.95
Energy contribution -27.32
Covariance contribution 1.36
Combinations/Pair 1.04
Mean z-score -1.63
Structure conservation index 0.59
SVM decision value 0.07
SVM RNA-class probability 0.567004
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15345787 109 - 20766785
CAAGCCCACCCGGUG---CACCCGGCAUCAUCAGCAUGUGCUGCUCGUUAUCCAGGGUCGAGUAGUCCGAAUCGAUGCUGGAGUAGAUGUGCUCCGAUGGCGGACGCAUCCC
...........((((---(..(((.((((...(((((((.((((......(((((.(((((..........))))).))))))))))))))))..)))).)))..))))).. ( -42.30)
>DroVir_CAF1 191831 108 - 1
----AGCUGCUGCUCCGGCAGCUGGCAUCAUCAGCAUGUGCUGCUCGUUGUCCAGCGUGGAAUAGUCCGAAUCGAUGCUGGAGUAGAUGUGCUCCGAGGGCGGACGCAUGCC
----.((..((((((((((((((((((....((((....)))).....)).))))).((((....))))......)))))))))))(((((.((((....))))))))))). ( -48.30)
>DroWil_CAF1 294972 103 - 1
AGGG------CGGGC---CAUUGGGCAUCAUCAGCAUAUGCUGCUCAUUGUCCAGCGUGGAGUAGUCUGAAUCGAUGCUCGAGUAGAUAUGCUCCGAUGGUGGACGCAUGCC
..((------((.((---...((((((.(((......))).))))))..(((((.((((((((((((((..(((.....))).))))).)))))).))).))))))).)))) ( -42.00)
>DroMoj_CAF1 198667 108 - 1
----AGCUGCUCCAGUCGCUGCCGGCAUCAUUAGCAUGUGCUGCUCGUUGUCCAGCGUGGAGUAGUCCGAGUCGAUGCUGGAGUAGAUGUGCUCCGAGGGCGGACGCAUGCC
----..(((((((((..((.....))..(((..((.((..((((((..((.....))..))))))..)).))..))))))))))))(((((.((((....)))))))))... ( -41.90)
>DroAna_CAF1 124339 100 - 1
GAUGACCG------------CCCGGCAUCAUCAACAUGUGCUGCUCGUUGUCCAGGGUCGAGUAAUCCGAGUCGAUGCUGGAGUAUAUGUGCUCCGAGGGCGGACGCAUCCC
((((.(((------------(((((((.(((....)))))))((.(((..(((((.(((((.(......).))))).)))))....))).)).....))))))...)))).. ( -41.10)
>DroPer_CAF1 137446 107 - 1
-GAGAC-AACGGGGC---CAGCGGGCAUCAUCAGCAUGUGCUGCUCGUUGUCCAGCGUCGAGUAGUCCGAGUCGAUGCUGGAGUAGAUGUGCUCCGAGGGCGGCCGCAUGCC
-.....-...(.(((---(((((((((.(((......))).))))))))((((((((((((.(......).))))))))((((((....))))))..)))))))).)..... ( -48.70)
>consensus
___GACCA_CCGGGC___CAGCCGGCAUCAUCAGCAUGUGCUGCUCGUUGUCCAGCGUCGAGUAGUCCGAAUCGAUGCUGGAGUAGAUGUGCUCCGAGGGCGGACGCAUGCC
.................................(((((((((((((.......(((((.((.(......).)).)))))((((((....))))))..)))))).))))))). (-25.95 = -27.32 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:53 2006