Locus 5037

Sequence ID 3R_DroMel_CAF1
Location 13,263,852 – 13,263,958
Length 106
Max. P 0.695378
window8225

overview

Window 5

Location 13,263,852 – 13,263,958
Length 106
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 80.20
Mean single sequence MFE -40.40
Consensus MFE -22.68
Energy contribution -24.00
Covariance contribution 1.32
Combinations/Pair 1.14
Mean z-score -2.05
Structure conservation index 0.56
SVM decision value 0.34
SVM RNA-class probability 0.695378
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13263852 106 + 27905053
CGGGACGAGCCGCAUCGAAAGGAG-UGGACUGGCCCCAA----AGUGGAUUGCAGCAAGAG---ACGCAGUGCGUGCCGCAUGCGAGCCACUUUCUAGUUGGCCCAAAACUCUG
.(((.(.((((((..(....)..)-))).)).).)))((----(((((.(((((((..(..---((((...)))).).)).))))).)))))))..((((.......))))... ( -37.30)
>DroSec_CAF1 16531 84 + 1
C----------------------G-UGGACUGGCCCCAA----AGUGGCUUGCAGCAAGCG---ACGCAGUGCGUGCCGCAUGCGAGCCACUUUCUAGUUGGCCCAAAACUCUG
.----------------------.-(((.(..((...((----(((((((((((((..((.---((((...)))))).)).)))))))))))))...))..).)))........ ( -37.40)
>DroSim_CAF1 16638 109 + 1
CGGGACGAGCCGCAUCGAAAGGAG-UGGACUGGCCCCAA----AGUGGCUUGCAGCAAGAGUGCGUGCAGUGCGUGCCGCAUGCGAGCCACUUUCUAGUUGGCCCAAAACUCUG
.(((.(.((((((..(....)..)-))).)).).)))((----(((((((((((((..(.(..(((.....)))..)))).)))))))))))))..((((.......))))... ( -47.10)
>DroEre_CAF1 17873 106 + 1
CGGGACGAGCCGCAUCGAAAGGAG-UAAACUGGACCCAA----AGUGGCUUGCAGCAAGAG---ACGCAGUGCGUGCCGCAUGCAAGUCACUUUCUAGUUGGCCCAAAACUCUG
.(((.(((......)))...((.(-(.(((((((....(----(((((((((((((..(..---((((...)))).).)).))))))))))))))))))).))))....))).. ( -37.80)
>DroYak_CAF1 24696 106 + 1
CGGGACGAGCCGCAUCGAAAGGAG-UGGACUGGACCCAA----AGUGGCUUGCAGCAAGAG---ACGCAGUGCGUGCCGCAUGCAAGCCACUUUCUAGUUGGCAUAAAACUCUG
.(((.(.((((((..(....)..)-))).)).).)))((----(((((((((((((..(..---((((...)))).).)).)))))))))))))..((((.......))))... ( -43.80)
>DroAna_CAF1 40484 102 + 1
CGGGACGAGU----UCGAUGGGAUCCAGACGGGAGUCUAGGGGAGUGGGCUG-----AAAA---AUGCAGUGCGUGCCGCAUGCAAGCCACUUUCUAGUUGGCCCAAAACUCGG
.....(((((----(...((((..((((((....)))).((..(((((((((-----....---...))))(((((...)))))...)))))..))....)))))).)))))). ( -39.00)
>consensus
CGGGACGAGCCGCAUCGAAAGGAG_UGGACUGGACCCAA____AGUGGCUUGCAGCAAGAG___ACGCAGUGCGUGCCGCAUGCAAGCCACUUUCUAGUUGGCCCAAAACUCUG
.(((.(((......)))..........((((((..........((((((((((.((..........)).(((((...)))))))))))))))..))))))..)))......... (-22.68 = -24.00 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:47 2006