Locus 6889

Sequence ID 3R_DroMel_CAF1
Location 18,197,153 – 18,197,313
Length 160
Max. P 0.973489
window11184 window11185

overview

Window 4

Location 18,197,153 – 18,197,273
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.00
Mean single sequence MFE -42.24
Consensus MFE -40.42
Energy contribution -41.06
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.64
Structure conservation index 0.96
SVM decision value 1.71
SVM RNA-class probability 0.973489
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18197153 120 + 27905053
CUGUUCGGUGUGGAGCAGGAAGUGGACAUGAUCUUUGCUUCGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGUAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCC
.((((((.((((((..(.((((..((.......))..)))).)...)))))).)(((.((..((((.((((((.((....)).)))))))))).)))))..))))).............. ( -43.50)
>DroSec_CAF1 5229 120 + 1
CUGUUCGGUGUGGAGCAGGAAGUGGACAUGAUCUUUGCUUCGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCC
.((((((.((((((..(.((((..((.......))..)))).)...)))))).)(((.((..((((.((((((.((....)).)))))))))).)))))..))))).............. ( -44.50)
>DroSim_CAF1 5278 120 + 1
UUGUUCGGUGUGGAGCAGGAAGUCGACAUGAUCUUUGCUUCGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCC
.((((((.((((((..(.((((.(((........))))))).)...)))))).)(((.((..((((.((((((.((....)).)))))))))).)))))..))))).............. ( -42.00)
>DroEre_CAF1 5463 120 + 1
CUGUUCGGUGUGGAGCAGGAAGUGGACAUGAUCUUUGCUUCGUUCAUCCGUAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCC
((((((......)))))).....(((.((((((((((.(((((((....).)))(((.((..((((.((((((.((....)).)))))))))).)))))..)))))..)))))))).))) ( -43.70)
>DroYak_CAF1 5355 120 + 1
CUGUUCGGUGUGGAGCAGGAAGUGGACAUGAUCUUUGCAUCGUUCAUCCGCAACGCCGCUGCUUUGACCGAAAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCC
((((((......)))))).....(((.(((((((((((...........)))..(((.((..((((.((((...((....))...)))))))).))))).........)))))))).))) ( -37.50)
>consensus
CUGUUCGGUGUGGAGCAGGAAGUGGACAUGAUCUUUGCUUCGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCC
.((((((.((((((..(.((((..((.......))..)))).)...)))))).)(((.((..((((.((((((.((....)).)))))))))).)))))..))))).............. (-40.42 = -41.06 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,197,193 – 18,197,313
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.67
Mean single sequence MFE -37.24
Consensus MFE -36.48
Energy contribution -36.80
Covariance contribution 0.32
Combinations/Pair 1.09
Mean z-score -1.17
Structure conservation index 0.98
SVM decision value 0.33
SVM RNA-class probability 0.690846
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18197193 120 + 27905053
CGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGUAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCCAAGAUCGAGAACCAGCAGGGCAUGCACAACCUGGACGAGA
((((((...(((..(((.((((((((.((((((.((....)).)))))))))..............((..((((........))))..))...)))))))).)))......))))))... ( -38.40)
>DroSec_CAF1 5269 120 + 1
CGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCCAAGAUUGAGAACCAGCAGGGCAUGCACAACCUGGACGAGA
((((((...(((..(((.((((((((.((((((.((....)).)))))))))..............((..((((........))))..))...)))))))).)))......))))))... ( -37.60)
>DroSim_CAF1 5318 119 + 1
CGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCCAAGAUCGAGAACCAGCAGGGCAUGCACAACCUG-ACGAGA
.((((.........(((.((..((((.((((((.((....)).)))))))))).)))))...........((((........))))..))))..(((((..........))))-.).... ( -36.00)
>DroEre_CAF1 5503 120 + 1
CGUUCAUCCGUAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCCAAGAUCGAGAACCAGCAGGGUAUGCACAACCUGGACGAGA
((((((........(((.((..((((.((((((.((....)).)))))))))).))))).......((..((((........))))..))....(((.....)))......))))))... ( -36.70)
>DroYak_CAF1 5395 120 + 1
CGUUCAUCCGCAACGCCGCUGCUUUGACCGAAAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCCAAGAUCGAGAACCAGCAGGGCAUGCACAACUUGGACGAGA
((((((...(((..(((.(((((((((........(....)(((((((.(......).))))))).))))((((........)))).......)))))))).)))......))))))... ( -37.50)
>consensus
CGUUCAUCCGCAACGCCGCUGCUUUGACCGAGAUCCGCAAGGUUCUUGGCGAGAAGGGCAAGAACAUCAAGAUCAUUUCCAAGAUCGAGAACCAGCAGGGCAUGCACAACCUGGACGAGA
((((((...(((..(((.((((((((.((((((.((....)).)))))))))..............((..((((........))))..))...)))))))).)))......))))))... (-36.48 = -36.80 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:35 2006