Locus 3844

Sequence ID 2R_DroMel_CAF1
Location 12,697,651 – 12,697,752
Length 101
Max. P 0.676468
window6211

overview

Window 1

Location 12,697,651 – 12,697,752
Length 101
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 76.46
Mean single sequence MFE -27.61
Consensus MFE -17.50
Energy contribution -17.83
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.63
SVM decision value 0.30
SVM RNA-class probability 0.676468
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12697651 101 - 20766785
GACAAGUGGCCAGAACCCGA-ACCGCCC----CUAACCGCCUACCAUACCAACCCCAUCUUGGGGC-U------UCAACGUAUU---CCGGCUACCCGGCGUUGCCACUUAAUUAG
...(((((((........((-(..((((----(............................)))))-)------))((((....---((((....)))))))))))))))...... ( -26.89)
>DroSec_CAF1 44543 101 - 1
GACAAGUGGCCAGAACCCGU-CCCGCCC----CUAACCUCCCACCAUGCCAACCCCAUCUUGGGGC-A------CCAACGUAUU---CCUGCUACCCGGCGUUGCCACUUAAUUAG
...(((((((..(((..(((-...((((----(............................)))))-.------...)))..))---)..(((....)))...)))))))...... ( -25.19)
>DroSim_CAF1 47474 101 - 1
GACAAGUGGCCAGAACCCGU-CCCGCCC----CCAACCGCCCACCAUGCCCAACCCAUCUUGGGGC-A------CCAACGUAUU---CCUGCUACCCGGCGUUGCCACUUAAUUAG
...(((((((..(((..(((-...((((----(............................)))))-.------...)))..))---)..(((....)))...)))))))...... ( -23.99)
>DroEre_CAF1 45187 108 - 1
GACAAGUGGCCAGAAACCCGCCCCGCCCCGCCCUCACCGCC-UCCAUAGCAACCCCAUCUUGGGGC-U------CCAAUACGUUGGGGCUGCUACCCGGCGUUGCCACUUAAUUAG
...(((((((.........((........))......((((-....(((((..(((.....)))((-(------((((....))))))))))))...))))..)))))))...... ( -35.70)
>DroYak_CAF1 47315 96 - 1
GACAAGUGGCCAGAACCCAACCC---------CCCACCACC-CCCAUGUCAACCCCAUCUUGGGGC-U------CCAACGUAUU---GCUGCUACCCGGCGUUGCCACUUAAUUAG
...(((((((.............---------.........-...((((...((((.....)))).-.------...))))...---((((.....))))...)))))))...... ( -22.00)
>DroAna_CAF1 43036 91 - 1
GACAAGUGGCCAG---CCAGCCC---------ACGAC----------CCCGCCCACAUUUUGGGGGCAUGGUUCGUAACGUAUU---CCGGCUACCCGGCGUUGCCACUUAAUUAG
...(((((((..(---((((((.---------(((((----------(..((((.(.....).))))..)).))))...(....---.)))))....)))...)))))))...... ( -31.90)
>consensus
GACAAGUGGCCAGAACCCGA_CCCGCCC____CCAACCGCC_ACCAUGCCAACCCCAUCUUGGGGC_A______CCAACGUAUU___CCUGCUACCCGGCGUUGCCACUUAAUUAG
...(((((((..........................................((((.....)))).........................(((....)))...)))))))...... (-17.50 = -17.83 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:25 2006