Locus 4408

Sequence ID 2R_DroMel_CAF1
Location 14,489,709 – 14,489,826
Length 117
Max. P 0.787139
window7046

overview

Window 6

Location 14,489,709 – 14,489,826
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.68
Mean single sequence MFE -45.55
Consensus MFE -27.58
Energy contribution -28.33
Covariance contribution 0.75
Combinations/Pair 1.23
Mean z-score -1.63
Structure conservation index 0.61
SVM decision value 0.58
SVM RNA-class probability 0.787139
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14489709 117 + 20766785
CACAAACGGUUGCCAUUAACCUGAGCAUGAGGCGCCCAGCGGCGGUUGCCAGCGAGGAACCAGAGGUCAUCGAGAUCGACGACGGCGAUGCGGCCGCAAAUGCAGAGGUGGCGGCCA
.......(((((((....((((..((((...(((((((.((.(((((.((.....))))))....(((.(((....))).)))).)).)).)).)))..))))..))))))))))). ( -48.10)
>DroVir_CAF1 158054 99 + 1
CCCAAACGGUUGCCAUCAACCUGAGCAUGCGUCGCCCCG---------CCAACGAG---------GUAAUCGAAAUUGAUGACGGUGAUGCUGCUGCCAAUGCCGAAGUGGCUGCCA
.......(((.(((((.......((((.((((((((..(---------((.....)---------)).((((....))))...))))))))))))((....))....))))).))). ( -32.70)
>DroPse_CAF1 119303 105 + 1
CCCAGACGGUGGCCAUCAACUUGAGCAUGCGGCGUCCGG---------CCAGCGAG---UCGGAAGUGAUCGAGAUCGAUGACGGCGAUGCCGCUGCCAAUGCCGAGGUGGCCGCGA
........((((((((...((((.(((((((((.(((((---------(......)---))))).((.((((....)))).))(((...))))))))..)))))))))))))))).. ( -48.40)
>DroGri_CAF1 141732 99 + 1
CGCAAACGGUGGCCAUCAAUCUGAGCAUGCGUCGCUCCG---------CCAACGAG---------GUGAUCGAGAUCGAUGACGGCGAUGCUGCCGCCAAUGCUGAAGUGGCCGCCA
.......(((((((((......(.(((.((((((((.((---------((.....)---------)))((((....))))...))))))))))))((....))....))))))))). ( -42.40)
>DroAna_CAF1 134605 117 + 1
CCCAGACGGUGGCCAUCAACCUCAGCAUGCGGCGUCCGGCGGAGCAGGUGGAGGCAGAGCCCGAGGUUAUCGAAAUCGAUGAUGGCGAUGCGGCCGCCAAUGCCGAGGUGGCAGCCA
.......(((.(((....(((((.(((((((((.((((.(......).)))).(((..(((....(((((((....))))))))))..))).)))))..)))).)))))))).))). ( -53.30)
>DroPer_CAF1 121729 105 + 1
CCCAGACGGUGGCCAUCAACUUGAGCAUGCGGCGUCCGG---------CCAGCGAG---UCGGAAGUGAUCGAGAUCGAUGACGGCGAUGCCGCUGCCAAUGCCGAGGUGGCCGCGA
........((((((((...((((.(((((((((.(((((---------(......)---))))).((.((((....)))).))(((...))))))))..)))))))))))))))).. ( -48.40)
>consensus
CCCAAACGGUGGCCAUCAACCUGAGCAUGCGGCGCCCGG_________CCAACGAG____C_GA_GUGAUCGAGAUCGAUGACGGCGAUGCCGCCGCCAAUGCCGAGGUGGCCGCCA
.......((((((((((.......((((..(((................................((.((((....)))).))(((......)))))).))))...)))))))))). (-27.58 = -28.33 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:53 2006