Locus 1013

Sequence ID 3L_DroMel_CAF1
Location 3,008,267 – 3,008,383
Length 116
Max. P 0.870942
window1566

overview

Window 6

Location 3,008,267 – 3,008,383
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.40
Mean single sequence MFE -40.30
Consensus MFE -21.61
Energy contribution -23.62
Covariance contribution 2.00
Combinations/Pair 1.23
Mean z-score -1.93
Structure conservation index 0.54
SVM decision value 0.87
SVM RNA-class probability 0.870942
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3008267 116 + 23771897
CAGGGAAUCGACGCCAUCUUUUAA----UUUCCGGCCCAGCGAUGGCUGGAUGUUGUCCACCAUGUGGGUAACCAGAUCAGCGAUAAUCGUCUCCAAAUUGGAGCUGUUCUCGCGCCCCA
..(((..........((((.....----..(((((((.......))))))).(((..((((...))))..))).))))..((((.(((.(.((((.....))))).))).))))..))). ( -38.40)
>DroSec_CAF1 42527 116 + 1
CAGAGCAUCAACGCCAUCUUUUAA----UUUCCGGCCCAGCGAUGGCUGGAUGUUGUCCACCAUGUGGGUAACCAAAUCAGCGAUAAUCGGCUCCAAGUUGGAGCUGUUCUCGCGCCCCA
..(.((......))).........----.....((((((((....)))))..(((..((((...))))..))).......((((.((.(((((((.....))))))))).)))))))... ( -39.70)
>DroSim_CAF1 43102 116 + 1
CAGGGCAUCAACGCCAUCUUUUAA----UUUUUUUCCCAGCGAUGGCUGGAUGUUGUCCACCAUGUGGGUAACCAAAUCAGCGAUAAUCGGCUCCAAGUUGGAGCUGUUCUCGCGCCCCA
..(((((((...((((((......----.............))))))..)))(((..((((...))))..))).......((((.((.(((((((.....))))))))).)))))))).. ( -43.91)
>DroEre_CAF1 45197 116 + 1
CAGCGCGUCCAGGGCCUCCUUGAA----UUGGCGGCCCAGCGAUGGCUGGAUAUUGUCCACCAUAUGGGCAAUAAGAUCUGCGAUAAUCGUCUCCAUAUCGGCGGUGUUCUCGCGACCCA
((((.(((((.(((((.((.....----..)).))))).).))))))))..(((((((((.....))))))))).....(((((..((((((........))))))....)))))..... ( -46.40)
>DroYak_CAF1 43094 116 + 1
CAGAUCAUCCGUGGCCUCCUUCAA----UUGGCGGCCCAGCGAUGGCUGGAUAUUGUCCACCAUAUGGGCAAUAAGAUCCUCGAUAAUCGUCUCCAUAUCGGAGCUAUUCUCGCGACCCA
..((((.((((.((((.((.....----..)).)))))(((....))))))(((((((((.....))))))))).))))(.(((.(((.(.((((.....))))).))).))).)..... ( -38.90)
>DroAna_CAF1 39536 116 + 1
CACCUCCUCCCACAGCUCCUUGAAGUGAUUGCCGACGCCGGGA-GGCUGG---UGCUCUACCACACGGUCCACCAGGUCUUUGAGGAUUAGCUCCAUGUCGGUGUGAUUGUCCCGACCCA
.............(((((((..(((.....(((...(((....-)))(((---((....(((....))).)))))))))))..))))...)))....(((((..(....)..)))))... ( -34.50)
>consensus
CAGAGCAUCCACGCCAUCCUUUAA____UUGCCGGCCCAGCGAUGGCUGGAUGUUGUCCACCAUAUGGGCAACCAGAUCAGCGAUAAUCGGCUCCAAAUCGGAGCUGUUCUCGCGACCCA
..................................(((((...((((.((((.....)))))))).)))))..........((((.((.(((((((.....))))))))).))))...... (-21.61 = -23.62 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:51 2006