Locus 6540

Sequence ID 2R_DroMel_CAF1
Location 20,450,248 – 20,450,351
Length 103
Max. P 0.575381
window10415

overview

Window 5

Location 20,450,248 – 20,450,351
Length 103
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 81.31
Mean single sequence MFE -35.03
Consensus MFE -21.20
Energy contribution -22.50
Covariance contribution 1.30
Combinations/Pair 1.24
Mean z-score -1.80
Structure conservation index 0.61
SVM decision value 0.08
SVM RNA-class probability 0.575381
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20450248 103 - 20766785
UAGCUUUGCGCGUGUGGCGUGUUAUUGUUUUACUUGUUGUUGUUCCACUAGAGGCGGGCCUCUUGGUCUUGACGACAAGGCACACUG--GGCAGAGUCAGUAAAC
..(((((((.(((((((((......)))....((((((((((..(((..(((((....))))))))...)))))))))).))))).)--.)))))))........ ( -39.00)
>DroSec_CAF1 13880 103 - 1
UAGCUUUGCGCGUGUGGCGUGUUAUUGUUUUACUUGUUGUUGUUUCACUAGAGGCGGGCCUCUUGGUCUCGACGACAAGGCACAGUG--GGCAGAGUCACUAAAC
..(((((((.(((((((((......)))....((((((((((....((((((((....)))).))))..)))))))))).)))).))--.)))))))........ ( -37.40)
>DroSim_CAF1 13833 103 - 1
UAGCUUUGCGCGUGUGGCGUGUUAUUGUUUUACUUGUUGUUGUUUCACUAGAGGCGGGCCUCUUGGUCUCGACGACAAGGCACAGUG--GGCAGAGUCACUAAAC
..(((((((.(((((((((......)))....((((((((((....((((((((....)))).))))..)))))))))).)))).))--.)))))))........ ( -37.40)
>DroEre_CAF1 20350 102 - 1
UAGCUUUGCGCGUGUGGCGUGUUAUUGUUUUACUUGUUGUUGUUUCCGUACAGGCGGGCCUCUUGGUCUCGACGACA-GGCACAGUG--GGCAGCGUCACAUGAC
..........((((((((((.(((((((....((((((((((...(((...(((....)))..)))...))))))))-)).))))))--)...)))))))))).. ( -38.10)
>DroWil_CAF1 27255 85 - 1
AAGCGGGGCGCGUGUGGCGUGUUUUUGUUUCCAUAUUUCUUG--------GAGGCGGGUCUC--------GAC---A-GAACUAGUGAUGGCAACGUGAUUUAAG
..((((((((((.....)))....(((((((((.......))--------))))))))))))--------).)---.-.....(((.(((....))).))).... ( -23.90)
>DroYak_CAF1 13858 102 - 1
UAGCUUUGCGCGUGUGGCGUGUUAUUGUUUUACUUGUUGUUGUUCCCGUAGAGGCGGGCCUCUUGGUCUCGACGACA-GGCACAGUG--GGCAAAAUCACAGAAC
....(((((.(((((((((......)))....((((((((((...(((.(((((....))))))))...))))))))-)))))).))--.))))).......... ( -34.40)
>consensus
UAGCUUUGCGCGUGUGGCGUGUUAUUGUUUUACUUGUUGUUGUUUCACUAGAGGCGGGCCUCUUGGUCUCGACGACA_GGCACAGUG__GGCAGAGUCACUAAAC
..((((((((((.....)))..((((((.((...((((((((..((...(((((....))))).))...)))))))).)).))))))...)))))))........ (-21.20 = -22.50 +   1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:22 2006