Locus 929

Sequence ID 3R_DroMel_CAF1
Location 3,116,827 – 3,116,917
Length 90
Max. P 0.991544
window1469

overview

Window 9

Location 3,116,827 – 3,116,917
Length 90
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 95.91
Mean single sequence MFE -19.88
Consensus MFE -18.52
Energy contribution -18.20
Covariance contribution -0.32
Combinations/Pair 1.11
Mean z-score -1.75
Structure conservation index 0.93
SVM decision value 2.27
SVM RNA-class probability 0.991544
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3116827 90 - 27905053
UUUUCUCACAUUUUUUCGCGGCUACCCAUGCACUUGCAUUGACACUCAAGCCGUGGCUGAAAGCCAGGCCAAAA-CCCCUGAACCAACAGC
................(((((((....((((....))))((.....)))))))))((((.....((((......-..))))......)))) ( -21.30)
>DroSec_CAF1 4546 90 - 1
UUUUCUCACAUUUUUUCGCGGCUCCCCAUGCACUUGCAUUGACACUCAAGCCGUGGCUGAAAGCCAAGCCAAAA-CCCCUGAACCAACAGC
..............(((((((((....((((....))))((.....))))))))((((........))))....-.....)))........ ( -18.20)
>DroSim_CAF1 9878 90 - 1
UUUUCUCACAUUUUUUCGCGGCUCCCCAUGCACUUGCAUUGACACUCAAGCCGUGGCUGAAAGCCAGGCCAAAA-CCCCUGAACCAACAGC
................(((((((....((((....))))((.....)))))))))((((.....((((......-..))))......)))) ( -20.70)
>DroEre_CAF1 4367 88 - 1
UUUUCUCACAUUUUUUCGCGGCU---CAUGCACUUGCAUUGACACUCAAGCCGUGGCCAAAAGCCAGGCCAAAAGCCCCCGAACCAACAGC
..............((((.((((---(((((....))).))).......(((.((((.....))))))).....)))..))))........ ( -20.70)
>DroYak_CAF1 8057 90 - 1
UUUUCUCACAUUUUUUCGCGGCUCCCCAUGCACUUGCAUUGACACUCAAGCCGUGGCUAAAAGCCAGGCCAAAA-CCCCUGAACCAACAGC
..........(((..((((((((....((((....))))((.....))))))))))..)))...((((......-..)))).......... ( -18.50)
>consensus
UUUUCUCACAUUUUUUCGCGGCUCCCCAUGCACUUGCAUUGACACUCAAGCCGUGGCUGAAAGCCAGGCCAAAA_CCCCUGAACCAACAGC
..............(((((((((....((((....))))((.....))))))))((((........))))..........)))........ (-18.52 = -18.20 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:36 2006