Locus 7139

Sequence ID 3R_DroMel_CAF1
Location 18,812,988 – 18,813,088
Length 100
Max. P 0.699165
window11552

overview

Window 2

Location 18,812,988 – 18,813,088
Length 100
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 81.28
Mean single sequence MFE -32.80
Consensus MFE -22.49
Energy contribution -21.93
Covariance contribution -0.55
Combinations/Pair 1.33
Mean z-score -1.67
Structure conservation index 0.69
SVM decision value 0.35
SVM RNA-class probability 0.699165
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18812988 100 + 27905053
AGAGUCAGG-ACAA-----AAUGGAUAAACACAAGGAUCGCAUUGAAUCCAUGCGCCUAAUUCUUCAGGUCAUGCAACUAUUUGGCCUCUGGCCGUGGUCCUUGAA
.........-....-----............((((((((((........((((.((((........)))))))).........((((...)))))))))))))).. ( -28.90)
>DroPse_CAF1 52943 105 + 1
GCCGACAAACGCUA-ACCAAAUGGACAGCCACAAGGAACGCAUUGAGUCCAUGCACCUGAUUCUUCAGGUCAUGCGACUGUUCGGCCUCUGGCCCUGGUCUCUGUC
(((((.....((..-.((...(((....)))...))...))....((((((((.((((((....)))))))))).))))..)))))....(((....)))...... ( -33.80)
>DroSim_CAF1 41123 105 + 1
AGAGUCAGG-ACUAAGCCCAAUGGAUAAACACAAGGAUCGCAUUGAAUCCAUGCGCCUGAUUCUUCGGGUCAUGCAACUAUUUGGCCUCUGGCCUUGGUCACUGAA
....(((((-((((((.(((..((.((((.....((((........)))).(((((((((....))))))...)))....)))).))..))).))))))).)))). ( -34.90)
>DroEre_CAF1 38479 105 + 1
AGAGCUAGG-ACUAAGCACAAUGGACGACCACCAGGAUCGCAUUGAAGCCAUGCGCCUCAUUCUCCGGGUCAUGCAACUAUUUGGCCUCUGGCCCUGGUCCCUGAA
.......((-((((.......((.(.((((...((((((((((.......)))))....)))))...)))).).)).......((((...)))).))))))..... ( -26.90)
>DroYak_CAF1 40919 105 + 1
AGAGCCAGG-ACUAAGCACCAUGGAUAGCCACAAGGAUCGCAUUGAAUCCAUGCGCCUGAUUCUUCGGGUCAUGCAACUAUUUGGCCUCUGGCCCUGGUCCUUGGA
....(((((-((((.(((.(((((((..((....)).((.....))))))))).((((((....))))))..)))........((((...)))).)))))).))). ( -34.80)
>DroPer_CAF1 51385 105 + 1
GCCGACAAACGCUA-ACCAAAUGGACAGCCACAAGCAACGCAUUGAGUCCAUGCACCUGAUUCUUCAGGUCAUGCGACUCUUCGGCCUCUGGCCCUGGUCUUUGUC
...((((((.((((-.((....))...((((...((..((....(((((((((.((((((....)))))))))).)))))..))))...))))..)))).)))))) ( -37.50)
>consensus
AGAGACAGG_ACUA_GCCCAAUGGACAACCACAAGGAUCGCAUUGAAUCCAUGCGCCUGAUUCUUCAGGUCAUGCAACUAUUUGGCCUCUGGCCCUGGUCCCUGAA
....(((((.((((......((((((.....(((........))).))))))((((((((....))))))...))........((((...)))).)))).))))). (-22.49 = -21.93 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:25 2006