Locus 2913

Sequence ID 3R_DroMel_CAF1
Location 7,795,959 – 7,796,062
Length 103
Max. P 0.705989
window4693

overview

Window 3

Location 7,795,959 – 7,796,062
Length 103
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 76.45
Mean single sequence MFE -29.62
Consensus MFE -18.29
Energy contribution -17.98
Covariance contribution -0.30
Combinations/Pair 1.16
Mean z-score -1.47
Structure conservation index 0.62
SVM decision value 0.36
SVM RNA-class probability 0.705989
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7795959 103 + 27905053
AGGCAAGCAUGAA-----UCUC----UAGAUGGC--UUUAUAAUUUGAAAUACCUUCG-UAGGUUCGAUUGCUUCCGCAAGACGUACAAGGCCGAAGGAUACUUUGGCAUGUACC
.((.(((((((((-----(((.----..((.((.--((((.....))))...)).)).-.)))))))..))))))).......(((((..(((((((....))))))).))))). ( -31.90)
>DroPse_CAF1 6703 112 + 1
ACCUGCU-AUAUAUGAAAUUCCCAUAGAGCUGAUCUACUCCAAUGUUUAAUC-CACGC-UAGGUUCGAUUGCUUCCGCAAGACAUACGCCGCCGAGGGCUACUUUGGCAUGUAUC
(((((((-...((((.......)))).))).(((..((......))...)))-.....-.))))....((((....))))...(((((..(((((((....))))))).))))). ( -23.10)
>DroSec_CAF1 6352 102 + 1
AGGCGGG-GUGUA-----UCUC----UAGAUGGC--UUUAUAUUGUGAAAUACCCUUC-CAGGUUCGACUGCUUCCGCAAGACGUACAAGGCCGAAGGAUACUUUGGCAUGUACC
.((.(((-((((.-----((..----..((((..--....))))..)).))))))).)-)..(((....(((....))).)))(((((..(((((((....))))))).))))). ( -32.60)
>DroSim_CAF1 8147 102 + 1
AGGCGGG-GUGUA-----UCUC----UAGAUGGC--UUUAUAAUGUGGAAUACCCUUC-CAGGUUCGACUGCUUCCGCAAGACGUACAAGGCCGAAGGAUACUUUGGCAUGUACC
..(((((-(..((-----((..----..))))((--.....(((.(((((.....)))-)).))).....)))))))).....(((((..(((((((....))))))).))))). ( -33.40)
>DroEre_CAF1 6536 105 + 1
AUA-GGG-AUAUA-----UUUCAAUAUAGAUGGC--AUUUCAAAUUGGAAUACCUUUC-UAGGUUCGAUUGCUUCCGCAAGACGUACAAGGCCGAGGGAUACUUUGGCAUGUACC
.((-(..-(..((-----(((((((...((....--...))..)))))))))..)..)-)).(((...((((....)))))))(((((..(((((((....))))))).))))). ( -28.70)
>DroYak_CAF1 6705 105 + 1
-GA-CGG-AUAUA-----UUUCUAUAUAGAUGUC--AUUUCCAUAUUGAAUACGAUUCAUAGGUUCGAUUGCUUCCGCAAGACGUACAAGGCCGAAGGAUACUUUGGCAUGUACC
-((-((.-.((((-----(....)))))..))))--.........((((((.(........)))))))((((....))))...(((((..(((((((....))))))).))))). ( -28.00)
>consensus
AGGCGGG_AUAUA_____UCUC____UAGAUGGC__AUUACAAUGUGGAAUACCAUUC_UAGGUUCGAUUGCUUCCGCAAGACGUACAAGGCCGAAGGAUACUUUGGCAUGUACC
..............................................................(((...((((....)))))))(((((..(((((((....))))))).))))). (-18.29 = -17.98 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:40 2006