Locus 2826

Sequence ID 2R_DroMel_CAF1
Location 9,825,595 – 9,825,701
Length 106
Max. P 0.543910
window4672

overview

Window 2

Location 9,825,595 – 9,825,701
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.47
Mean single sequence MFE -26.86
Consensus MFE -14.97
Energy contribution -14.25
Covariance contribution -0.72
Combinations/Pair 1.29
Mean z-score -1.76
Structure conservation index 0.56
SVM decision value 0.02
SVM RNA-class probability 0.543910
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9825595 106 + 20766785
GCG---AAUUUGGGC--UGAGAUCUGUUUCGCUGGAGCUGUAAAUUCCUC-ACAUAGUAAGCUGAAAUUUCGGGAAAACAACAUGCAGAGUGUUUUCCCAA------AUUUCGCAAAA--
(((---(((((.(((--(.....((((......((((.......))))..-..))))..)))).)))....(((((((((.(.......))))))))))..------..)))))....-- ( -27.60)
>DroSec_CAF1 63308 103 + 1
GCG---AAUUU------UGGGAUCUGUUUCGCUGGAGCUGUAAGUUCCUCAACAUUGUAAGCUGAAAUUUCGGGAAAACAACAUGCAGAGUGUUUUCCCAA------AUUUCGCUAAA--
(((---((...------..........))))).(((((.....)))))...........(((.(((((((.(((((((((.(.......))))))))))))------))))))))...-- ( -30.72)
>DroSim_CAF1 64862 103 + 1
GCG---AAUUU------UGGGAUCUGUUUCGCUGGAGCUGUAAAUUCCUCAACAUAGUAAGCUGAAAUUUCGGGAAAACAACAUGCAGAGUGUUUUCCCAA------AUUUCGCUAAA--
(((---((.((------(..((...((((((((...(((((............))))).))).))))).))(((((((((.(.......))))))))))))------).)))))....-- ( -27.50)
>DroEre_CAF1 68103 95 + 1
------------------CAGAUCUGUGUCGUUGGAGUUGUAAAUUCCUC-ACAUAAUAAGCUGAAAUUUCGGGAAAGCAACAUGCAGAGUGUUUUCCCAA------AUUUCGCAAAAAA
------------------......(((((.(..(((((.....))))).)-)))))....((.(((((((.(((((((((.(.......))))))))))))------)))))))...... ( -25.90)
>DroYak_CAF1 65220 108 + 1
GCG---AAUUUGGAC--UCAGAUCUGUUUCGGUGGAGCUGUAAAUUCCUC-ACAUAAUAAGCUGAAAUUUCGGGAAAGCAACAUGCACAGUGUUUUCCCAA------AUUUCGCAAAAAA
(((---((((((.((--((..(((......))).))).).)))))))...-............(((((((.(((((((((.(.......))))))))))))------)))))))...... ( -28.50)
>DroAna_CAF1 63338 118 + 1
GAUUCUGUUCUGGGAUAUGAGAUCUGAGAUCUGGGAGCUGUAAAUUUCUC-ACACAUUAAGCUGAUUUUUCGGGAAA-UAACCUGCAAAGUAUUUUCCCAAAAAAAAAUUGCGCAAAAUA
.(((.((((((.((((.....)))).)))..((((((((...........-........)))..(((((.((((...-...)))).)))))....)))))............))).))). ( -20.91)
>consensus
GCG___AAUUU______UGAGAUCUGUUUCGCUGGAGCUGUAAAUUCCUC_ACAUAGUAAGCUGAAAUUUCGGGAAAACAACAUGCAGAGUGUUUUCCCAA______AUUUCGCAAAA__
....................((...(((((.....((((....................))))))))).))(((((((((.(.......))))))))))..................... (-14.97 = -14.25 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:25 2006