Locus 3061

Sequence ID 3L_DroMel_CAF1
Location 8,846,270 – 8,846,367
Length 97
Max. P 0.826491
window4775

overview

Window 5

Location 8,846,270 – 8,846,367
Length 97
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 65.23
Mean single sequence MFE -26.56
Consensus MFE -5.36
Energy contribution -7.12
Covariance contribution 1.76
Combinations/Pair 1.08
Mean z-score -2.70
Structure conservation index 0.20
SVM decision value 0.70
SVM RNA-class probability 0.826491
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8846270 97 + 23771897
CCAAAAUCUGCCAGCUU--CGAUGUCAGCAGAGCAACAGCCACAGCAGCAAC-ACAACGUGCAACUGCGACACCAACACCAACGGCAAUGUUGCAAGU-------UA
......(((((..((..--....))..)))))(((((((((...((((...(-((...)))...))))(....).........)))..))))))....-------.. ( -25.60)
>DroPse_CAF1 124634 90 + 1
CCAAAAUCUGCCAGCUUCUCGAUGUCAG----GCAACAACCAGAGCA---A---GCAGGAGCAGCUAUGGCG------CUCGUGGC-AUGUGGCAAGCAUGGCAGCA
.......((((((((((.((((((((((----....).....((((.---.---((....)).((....)))------))).))))-)).))).)))).)))))).. ( -33.20)
>DroSec_CAF1 106485 80 + 1
CCAAAAUCUGCCAGCUU--CGAUGUCAGCAGAGCAACA---ACAGCAGCAAC-ACAACGUGCAA--------------CCAACGGCAAUGUUGCAAGU-------UA
......(((((..((..--....))..)))))((....---...)).(((((-(...(((....--------------...)))....))))))....-------.. ( -19.50)
>DroYak_CAF1 109558 80 + 1
CCAAAAUCUGCCAGCUU--CGAUGUCAGCAGAGC------------------AACAACAUGCAACUGCAACACCAACACCAAUGGCAAUGUUGCAAGU-------UA
......(((((..((..--....))..)))))((------------------(......)))(((((((((((((.......)))...)))))).)))-------). ( -21.30)
>DroPer_CAF1 124539 90 + 1
CCAAAAUCUGCCAGCUUCUCGAUGUCAG----GCAACAACCAGAGCA---A---GCAGGAGCAGCUAUGGCG------CUCGUGGC-AUGUUGCAAGCAUGGCAGCA
.......((((((((((...(....)..----((((((.(((((((.---.---((....)).((....)))------))).))).-.)))))))))).)))))).. ( -33.20)
>consensus
CCAAAAUCUGCCAGCUU__CGAUGUCAGCAGAGCAACA_CCACAGCA___A__ACAACGUGCAACUACGACA______CCAAUGGCAAUGUUGCAAGU_______UA
......(((((..((........))..)))))............................(((((........................)))))............. ( -5.36 =  -7.12 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:35 2006