Locus 6376

Sequence ID X_DroMel_CAF1
Location 16,023,659 – 16,023,779
Length 120
Max. P 0.794390
window10409

overview

Window 9

Location 16,023,659 – 16,023,779
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.52
Mean single sequence MFE -49.70
Consensus MFE -32.46
Energy contribution -33.90
Covariance contribution 1.44
Combinations/Pair 1.03
Mean z-score -1.93
Structure conservation index 0.65
SVM decision value 0.60
SVM RNA-class probability 0.794390
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16023659 120 - 22224390
AAAAAAGGCGAAAAGGAGGGUAGCCGAGUUGUCCGUAUCCGGAAUCCGGAAUUCCCGGGCUCCUGGGCUUACGGGUUCUCAGGCAACGGCACGGGCACGGGCACGGGCACCCUUCCCUGA
.....(((......(((((((.(((..((.((((((..((((((((((.....(((((....)))))....)))))))...(....)....)))..)))))))).))))))))))))).. ( -55.20)
>DroSec_CAF1 91382 111 - 1
AA---AGGCGAAAGGGAGGGUAGCGGAGUUGCCCGUAUCCGGAAUCCGGAAUUCCCGGGCUCCUGGGCUUACGGGUUCUCAGGCACCGGCAUG------GGCACGGGCACCCUUCCCUGA
..---.......(((((((((.((.(((..(((((((((((((..((((.....))))..))).)))..))))))).))).....(((((...------.)).))))))))).))))).. ( -53.90)
>DroEre_CAF1 88962 92 - 1
AA---GGGCG-----GAGGGUGGCGGAGUUGUCCGUAUCCGGAAUCCCGCU--CCCGUGCUCCUGGGCUUACGGGUUCUCAGGCACU------------------GGCACCCUUCCCUGG
..---(((.(-----(((((((((((.(...((((....))))..))))).--((.(((((...(((((....)))))...))))).------------------))))))))))))).. ( -43.00)
>DroYak_CAF1 74517 111 - 1
AA---AGGCGAAAGGGAGGGUGGCGGAGUUGUCCGUAUCCGGAAUCCUGCUUCCCCGGGCUCCUGGGCUUACGGGUUCUCAGGCACUGGCACU------GGCACUGGCACCCUUCCCUGC
..---.......((((((((((.(((...((((.((..((((...((((....((((((((....))))..))))....))))..)))).)).------))))))).))))).))))).. ( -46.70)
>consensus
AA___AGGCGAAAGGGAGGGUAGCGGAGUUGUCCGUAUCCGGAAUCCGGAAUUCCCGGGCUCCUGGGCUUACGGGUUCUCAGGCACCGGCACG______GGCACGGGCACCCUUCCCUGA
.............((((((((....(((...((((((((((((..((((.....))))..))).)))..))))))..)))..((....((..........))....)))))))))).... (-32.46 = -33.90 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:10 2006