Locus 1320

Sequence ID 3R_DroMel_CAF1
Location 3,891,183 – 3,891,287
Length 104
Max. P 0.956796
window2161

overview

Window 1

Location 3,891,183 – 3,891,287
Length 104
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 93.14
Mean single sequence MFE -34.77
Consensus MFE -31.05
Energy contribution -30.86
Covariance contribution -0.19
Combinations/Pair 1.19
Mean z-score -1.83
Structure conservation index 0.89
SVM decision value 1.47
SVM RNA-class probability 0.956796
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3891183 104 + 27905053
GUGCGUGUGUGGAAACAUGGCAAUUGCCAAGUGCUGACG-UUGAGUGCGCUACACACGAGUGACACUUGUAUACAUC------UCUGCAAGUGUUGAUGUGUCUAUGCC---AU
...(((((((((.....((((....)))).(..((....-...))..).)))))))))...((((((((((......------..))))))))))..............---.. ( -35.10)
>DroSec_CAF1 14352 104 + 1
GUGCGUGUGUGGAAACAUGGCAAUUUCCAAGUGCUGACG-UUGAGUGCGCUACACACGAGUGACACUUGUAUACAUC------UCUGCAAGUGUUGAUGUGUCUAUGCC---AU
........(((....)))((((.......(((((..((.-....)))))))(((((....(((((((((((......------..))))))))))).)))))...))))---.. ( -31.20)
>DroSim_CAF1 14555 104 + 1
GUGCGUGUGUGGAAACAUGGCAAUUGCCAAGUGCUGACG-UUGAGUGCGCUACACACGAGUGACACUUGUAUACAUC------UCUGCAAGUGUUGAUGUGUCUAUGCC---AU
...(((((((((.....((((....)))).(..((....-...))..).)))))))))...((((((((((......------..))))))))))..............---.. ( -35.10)
>DroEre_CAF1 13222 104 + 1
GUGCGUGUGUGGAAACAUGGCAAUUGCCAAGUGCUGACG-UUGAGUGCGCUACACACGAGUGACACUUGUAUACAUC------UCUGCAAGUGUUGAUGUGUCUAUGCC---AU
...(((((((((.....((((....)))).(..((....-...))..).)))))))))...((((((((((......------..))))))))))..............---.. ( -35.10)
>DroYak_CAF1 14384 106 + 1
GUGCGUGUGUGGAAACAUGGCAAUUGCCAAGUGCUGACG-UUGAGUGCGCUACACACGAGUGACACUUGUAUACAUCUC----UCUGCAAGUGUUGAUGUGUCUAUGCC---AU
...(((((((((.....((((....)))).(..((....-...))..).)))))))))...((((((((((........----..))))))))))..............---.. ( -34.20)
>DroPer_CAF1 28104 113 + 1
GUGCGUGCGUGCUAACAUGGCAAUUGCCAAGUGUUGGCUUUUGAGUGCGCUACACACGAGUGACACUUGUAUACAUCUCUCUCUCUAUGAGUGUUGAUGUGUC-AUGCCACCAU
(((((..(..(((((((((((....))))..)))))))......)..))).))....(.(((.((..((.(((((((.(.(((.....))).)..))))))))-))).)))).. ( -37.90)
>consensus
GUGCGUGUGUGGAAACAUGGCAAUUGCCAAGUGCUGACG_UUGAGUGCGCUACACACGAGUGACACUUGUAUACAUC______UCUGCAAGUGUUGAUGUGUCUAUGCC___AU
...(((((((((.....((((....)))).(..((.(....).))..).)))))))))...((((((((((..............))))))))))................... (-31.05 = -30.86 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:41 2006