Locus 7036

Sequence ID 3L_DroMel_CAF1
Location 19,043,649 – 19,043,769
Length 120
Max. P 0.754958
window11414

overview

Window 4

Location 19,043,649 – 19,043,769
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.64
Mean single sequence MFE -26.18
Consensus MFE -15.88
Energy contribution -16.36
Covariance contribution 0.48
Combinations/Pair 1.09
Mean z-score -2.26
Structure conservation index 0.61
SVM decision value 0.49
SVM RNA-class probability 0.754958
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19043649 120 + 23771897
AAGAAUUUAUUGCCUUUUCUAACAAGUAAAAGUCGAAUAAGGAAAACCAGAAGGAAACACUUGUCGACUGGAAAAGAUUAAAGAUUUCUGCUGCAUCUAACGGCAGAGAAGGAAAAACCC
.............(((((((..........((((((.((((.....((....)).....)))))))))))))))))........(((((((((.......)))))))))........... ( -26.90)
>DroSec_CAF1 176879 110 + 1
AAAAGUUUAUUGCCUUUUCUAACAAGUAAAAGUCCAAUAAGGAAAACCAGAAGGAAACACUG---GACUGGAAAA-------GAUUUCUGCUGCAGCUAACGGCAGAGAAGGAAAGCCCC
....((((.....((((((((...........(((.....)))...((((..(....).)))---)..)))))))-------).(((((((((.......)))))))))....))))... ( -28.30)
>DroSim_CAF1 186526 113 + 1
ACAAGUUUAUUACCUUUUCUAACAAGUAAAAGUCCAAUAAGGAAAACCAGAAGGAAACACUUGUCGACUGGAAAA-------GAUUUCUGCUGCAACUAACGGCAGAGAAGGAAAGCCCC
....((((.....((((((((((((((.....(((.....))).........(....)))))))....)))))))-------).(((((((((.......)))))))))....))))... ( -28.40)
>DroEre_CAF1 179175 101 + 1
AGAAGUUGAUUGCCUUUUCUAACAAGUAAAAGUCCAUAAAGGAAAACCAGAAGG------------AGUGGAAAA-------GAUUUCUGCUGCAGCUAGCGGCAGAGAAGGAAAACCCC
.............((((((((...........(((.....)))...((....))------------..)))))))-------).((((((((((.....)))))))))).((.....)). ( -26.00)
>DroYak_CAF1 200427 113 + 1
AGAAGUUUAUUGCCUUUACCAACAAGUAAAAGUCCAAUAAGAAAAGCCAGAAGGAAACAGUCGUUGAGUGGAAAA-------GAUUUCUGGUGCAGCUAACGGCAGAAAAGGAAACCGAC
.........((((((((((......))))).........((....((((((((....((.((...)).)).....-------..))))))))....))...)))))....(....).... ( -21.30)
>consensus
AAAAGUUUAUUGCCUUUUCUAACAAGUAAAAGUCCAAUAAGGAAAACCAGAAGGAAACACUUGU_GACUGGAAAA_______GAUUUCUGCUGCAGCUAACGGCAGAGAAGGAAAACCCC
............(((((((((...........(((.....)))...((....))..............))))))..........(((((((((.......))))))))))))........ (-15.88 = -16.36 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:08 2006