Locus 4680

Sequence ID 3R_DroMel_CAF1
Location 12,333,813 – 12,333,912
Length 99
Max. P 0.563481
window7683

overview

Window 3

Location 12,333,813 – 12,333,912
Length 99
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 89.70
Mean single sequence MFE -27.76
Consensus MFE -20.36
Energy contribution -21.40
Covariance contribution 1.04
Combinations/Pair 1.12
Mean z-score -1.68
Structure conservation index 0.73
SVM decision value 0.06
SVM RNA-class probability 0.563481
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12333813 99 - 27905053
UCAGAAACUCC-UUUGACUCACUGUGCGGUGAGU----GAGCGAGUUUGUUAAACAGUGUAAAGUUACACGCAACUAAGCACUUAACUGCAUAAAAGCUGGAGC
(((((((((((-((..(((((((....)))))))----))).))))))(((((...(((((....)))))((......))..)))))..........))))... ( -27.80)
>DroPse_CAF1 5668 104 - 1
GCACAGACUGCACUUUGCACACUGUGUGGCAGGCACUCGCCUGAGUUUGCUUAACAGUGUAAAGUUACACGCAACUAAGCACUUAACUGCAUAAAAGCUCGAGC
((((((..(((.....)))..))))))..(((((....)))))((((((((((...(((((....))))).....))))))...))))((......))...... ( -30.30)
>DroSec_CAF1 2670 99 - 1
UCAGGAACUCC-UUUGACUCACUGUGCGGUGAGU----GAGCGAGUUUGUUAAACAGUGUAAAGUUACACGCAACUAAGCACUUAACUGCAUAAAAGCUCGAGC
..(((....))-)((.(((((((....)))))))----.))(((((((........(((((....)))))(((..(((....)))..)))....)))))))... ( -27.00)
>DroSim_CAF1 1827 99 - 1
UCAGGAACUCC-UUUGACUCACUGUGCGGUGAGU----GAGCGAGUUUGUUAAACAGUGUAAAGUUACACGCAACUAAGCACUUAACUGCAUAAAAGCUCGAGC
..(((....))-)((.(((((((....)))))))----.))(((((((........(((((....)))))(((..(((....)))..)))....)))))))... ( -27.00)
>DroEre_CAF1 1852 99 - 1
UCAGAAACUCC-UUUGACUCACUGUGCGGUGAGC----GAGCGAGUUUGUUAAACAGUGUAAAGUUACACGCAACUAAGCACUUAACUGCAUAAAAGCUCGAGC
(((((......-)))))((((((....))))))(----((((.....(((.....(((((..((((......))))..))))).....))).....)))))... ( -26.70)
>consensus
UCAGAAACUCC_UUUGACUCACUGUGCGGUGAGU____GAGCGAGUUUGUUAAACAGUGUAAAGUUACACGCAACUAAGCACUUAACUGCAUAAAAGCUCGAGC
.......(((......(((((((....)))))))....((((.....(((.....(((((..((((......))))..))))).....))).....))))))). (-20.36 = -21.40 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:15 2006