Locus 1333

Sequence ID 2L_DroMel_CAF1
Location 3,527,754 – 3,527,929
Length 175
Max. P 0.636455
window2178 window2179

overview

Window 8

Location 3,527,754 – 3,527,849
Length 95
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 82.32
Mean single sequence MFE -31.08
Consensus MFE -19.83
Energy contribution -20.72
Covariance contribution 0.89
Combinations/Pair 1.33
Mean z-score -1.90
Structure conservation index 0.64
SVM decision value 0.13
SVM RNA-class probability 0.596162
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3527754 95 + 22407834
GAAUCUUCGGCGAAGACUUGCCGUUUUUUGCUGAGGAUAGAGCGGAUAUUUUCGUUGGUCGAGUCUUUGAUGACGGGAAUCCUCACAGGAGUUCC
..((((((((((((((........))))))))))))))..((((((....))))))......(((......)))((((.(((.....))).)))) ( -30.10)
>DroSec_CAF1 36765 95 + 1
GAGUCUUCGGCGAAGACUUGCCGUUUUUUGCUGAGGAUGGAGCGGAUAUUUUCGUUGGUCGAGUCUUUGAUUACGGAAAUCCUCACAGGAGUUCC
..((((((((((((((........))))))))))))))(((((.....(((((((.((((((....)))))))))))))(((.....)))))))) ( -32.90)
>DroSim_CAF1 38434 95 + 1
GAGUCUUCGGCAAAGACUUGCCGUUUUUUGCUGAGGAUGGAGCGGAUAUUUUCGUUGGUCGAGUCCUUGAUUACGGAAAUCCUCACAGGAGUUCC
..((((((((((((((........))))))))))))))(((((.....(((((((.((((((....)))))))))))))(((.....)))))))) ( -34.60)
>DroEre_CAF1 37897 92 + 1
GCAUCUUCGGCGAAGACUUGCCGUUUUUUGCUGAGGAUGGAACGCAAGUUUUCGU---UCGAGUUUUUGCUGACGGGAAUUCUCACAGGAGUUCC
....(.((((((((((((((((((((((....))))))))(((....))).....---.)))))))))))))).)((((((((....)))))))) ( -34.70)
>DroYak_CAF1 36343 95 + 1
GAAUCUUCGCCGAAGACUUGGCGUUUUUUGCUGAGGAUGGAACGCACAUUAGCGUUGGUCGAGUCUUUGAUGAUGGGAAUCCUCACAGGAGUUCC
......(((.((((((((((((((((((....))))))..(((((......))))).)))))))))))).))).((((.(((.....))).)))) ( -31.80)
>DroAna_CAF1 33064 95 + 1
GAGUCUUCCGCGAAAAGUUCCCUCUUUUUGCAUAGAAUCGAUCGUAGAUUGUUAUUAGUUGCGUCCUUUAUGACUGGAUUUCGGACAGGAGUGCC
..((.((((((((((((......))))))))...(((((.((((((((.(((........)))...))))))).).)))))......)))).)). ( -22.40)
>consensus
GAAUCUUCGGCGAAGACUUGCCGUUUUUUGCUGAGGAUGGAGCGGAUAUUUUCGUUGGUCGAGUCUUUGAUGACGGGAAUCCUCACAGGAGUUCC
..((((((((((((((........))))))))))))))..((((((....))))))......(((......)))((((.(((.....))).)))) (-19.83 = -20.72 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,527,827 – 3,527,929
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 82.75
Mean single sequence MFE -34.97
Consensus MFE -25.53
Energy contribution -25.82
Covariance contribution 0.28
Combinations/Pair 1.32
Mean z-score -1.70
Structure conservation index 0.73
SVM decision value 0.21
SVM RNA-class probability 0.636455
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3527827 102 + 22407834
CGGGAAUCCUCACAGGAGUUCCUUUGCGCUGCGGUUUUUGUGGCGUUGGACUGUCCAGAAUUUCCACACUCAAUGUCCCAUCUUGCUUGAUGGGAGAUUCCU
.(((((((......(((((((....((((..((.....))..))))(((.....))))))))))...........(((((((......)))))))))))))) ( -36.30)
>DroSec_CAF1 36838 102 + 1
CGGAAAUCCUCACAGGAGUUCCUUUACGCUGCGGUUUUUGUGGCGUUGGACUGUCCAGGAUUUCAACGCUCAAAGUCCCAUCUGGCUUGAUGGGAGAUUCCU
..((((((((.((((....(((...((((..((.....))..)))).)))))))..))))))))...........(((((((......)))))))....... ( -36.70)
>DroSim_CAF1 38507 102 + 1
CGGAAAUCCUCACAGGAGUUCCUUUACGCUGCGGUUUUUGUGGCGUUGGACUGUCCAGGAUUUCAACGCUCAAAGUCCCAUCUGCCUUGAUGGGAGAUUCCU
..((((((((.((((....(((...((((..((.....))..)))).)))))))..))))))))...........(((((((......)))))))....... ( -36.70)
>DroEre_CAF1 37967 102 + 1
CGGGAAUUCUCACAGGAGUUCCUUUGCGCUGAGGCUUUUGUGGCGAGGGACUGUCCAGCAUUUCAACGAUCAAAGUGCCAUCUGGCUUGAUGGGAGAUUCCU
.((((((.(((...(((..((((((((((..........)).))))))))...)))..........(.(((((...(((....)))))))).)))))))))) ( -32.30)
>DroYak_CAF1 36416 102 + 1
UGGGAAUCCUCACAGGAGUUCCUUUGCGCUGAGGUUUUUGUGGCGUGGAACUGUCCAGGAUUUCAACGCUCAGAGUUCCAUCUGGCUUGAUGGGAGAUUCUU
.(((((((((((..((((((((...(((((...........))))))))))..)))......((((.((.((((......)))))))))))))).))))))) ( -33.10)
>DroAna_CAF1 33137 95 + 1
CUGGAUUUCGGACAGGAGUGCCCUUGCGCUGCGGUUUCUGUGGCGUGGGGCUGUCCAGGAUUUGUAU-----AGCUUCCGCCUUGCCAGGUGUAACAUCC--
((((.....((((((......(((..(((..(((...)))..)))..))))))))).(((...(...-----..).)))......))))...........-- ( -34.70)
>consensus
CGGGAAUCCUCACAGGAGUUCCUUUGCGCUGCGGUUUUUGUGGCGUGGGACUGUCCAGGAUUUCAACGCUCAAAGUCCCAUCUGGCUUGAUGGGAGAUUCCU
..((((((((....(((((((....(((((((((...))))))))).))))..)))))))))))...........(((((((......)))))))....... (-25.53 = -25.82 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:54 2006