Locus 7775

Sequence ID 3R_DroMel_CAF1
Location 20,818,753 – 20,818,857
Length 104
Max. P 0.923228
window12539

overview

Window 9

Location 20,818,753 – 20,818,857
Length 104
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 77.73
Mean single sequence MFE -26.45
Consensus MFE -15.56
Energy contribution -18.12
Covariance contribution 2.56
Combinations/Pair 1.11
Mean z-score -2.22
Structure conservation index 0.59
SVM decision value 1.15
SVM RNA-class probability 0.923228
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20818753 104 - 27905053
-------GACAGAA-UGCAAUGAACCCAUACUUAUUUUUUCUCAAAUUUUCCAGAGGGGGUGCGAUGAAGUGCACCCCGAAAUGUGGGAAAUACGACGACGAGAAGAAAUUU
-------.......-..................((((((((((..((((((((.(.((((((((......))))))))....).))))))))..(....))))))))))).. ( -30.30)
>DroSec_CAF1 34379 111 - 1
AUCAUACGACAGAA-UGCAAUGAACCCAUACUUAUUUUUUCUCAAAUUUUCCAUAGGGUGUGCGAUAAAGUGCACCCCGAAAUGUGAAAAAAACCACGACGAGAAGAAAUUU
..............-..................((((((((((....((((....(((((..(......)..))))).))))((((........))))..)))))))))).. ( -25.80)
>DroSim_CAF1 34276 111 - 1
AUCAUACGACAGAA-UGCAAUGAACCCAUACUUAUUUUUUCUCAAAUUUUCCAGAGGGUGUGCUAUAAAGUGCACCCCGAAAUGUGGAAAAAACGACGACGAGAAGAAAUUU
..............-..................((((((((((...(((((((.((((((..((....))..))))).....).)))))))...(....))))))))))).. ( -27.10)
>DroYak_CAF1 27737 100 - 1
AUCAUGUGACCAAAAAACAC--------UGCCUAUUUCUUGUCAUAUUUUCCUGGGGGU----UAUAAAGUGCACCCCGAAAUGUGGCAAACACUCUGCCAAGUAGAAAUGU
.....(((.........)))--------....((((((((((((((((((...((((((----........)).))))))))))))))))..(((......))).)))))). ( -22.60)
>consensus
AUCAUACGACAGAA_UGCAAUGAACCCAUACUUAUUUUUUCUCAAAUUUUCCAGAGGGUGUGCGAUAAAGUGCACCCCGAAAUGUGGAAAAAACGACGACGAGAAGAAAUUU
.................................((((((((((....((((....((((((((......)))))))).))))(((((......)))))..)))))))))).. (-15.56 = -18.12 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:23 2006