Locus 11820

Sequence ID	dm3.chr3R
Location	24,047,613 – 24,047,719
Length	106
Max. P	0.606145

overview

Window 4

Location	24,047,613 – 24,047,719
Length	106
Sequences	11
Columns	119
Reading direction	forward
Mean pairwise identity	91.48
Shannon entropy	0.17277
G+C content	0.35876
Mean single sequence MFE	-25.48
Consensus MFE	-19.96
Energy contribution	-20.03
Covariance contribution	0.07
Combinations/Pair	1.10
Mean z-score	-1.82
Structure conservation index	0.78
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.23
SVM RNA-class probability	0.606145
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24047613 106 + 27905053
------------CCCCGACGUCGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
------------.((((....))))..((((...(((((((.(((..(((.....)))..))).))))))).-.....))))....((((((((((......))))))))))....... ( -27.90, z-score =  -2.50, R)
>droWil1.scaffold_181108 1285781 118 + 4707319
UCUGGUUGUCCUCUUUUUUUUCUGGUCCCAGGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
(((((..(.((............)).))))))..(((((((.(((..(((.....)))..))).)))))))(-((.....)))...((((((((((......))))))))))....... ( -25.50, z-score =  -1.19, R)
>droPer1.super_0 9954658 106 - 11822988
-------------UCUGUUUGGGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCUACCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
-------------.....((((((...((((((.(((((((.(((..(((.....)))..))).))))))).))....))))....((((((((((......)))))))))).)))))) ( -25.00, z-score =  -1.17, R)
>dp4.chr2 22760274 106 - 30794189
-------------UCUGUUCGGGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCUACCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
-------------.......((((...((((((.(((((((.(((..(((.....)))..))).))))))).))....))))....((((((((((......)))))))))).)))).. ( -24.30, z-score =  -0.93, R)
>droAna3.scaffold_13340 22184606 104 + 23697760
------------CCCCGGC--UGGGUCCCCUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
------------.(((...--.)))(((..((..(((((((.(((..(((.....)))..))).))))))).-.))....)))...((((((((((......))))))))))....... ( -23.90, z-score =  -1.28, R)
>droEre2.scaffold_4820 6473908 106 - 10470090
------------CCCCGACGUCGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
------------.((((....))))..((((...(((((((.(((..(((.....)))..))).))))))).-.....))))....((((((((((......))))))))))....... ( -27.90, z-score =  -2.50, R)
>droYak2.chr3R 6380023 106 - 28832112
------------CCCCGACGUCGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
------------.((((....))))..((((...(((((((.(((..(((.....)))..))).))))))).-.....))))....((((((((((......))))))))))....... ( -27.90, z-score =  -2.50, R)
>droSec1.super_22 659947 106 + 1066717
------------CCCCGACGUCGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
------------.((((....))))..((((...(((((((.(((..(((.....)))..))).))))))).-.....))))....((((((((((......))))))))))....... ( -27.90, z-score =  -2.50, R)
>droSim1.chr3R 23737278 106 + 27517382
------------CCCCGACGUCGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
------------.((((....))))..((((...(((((((.(((..(((.....)))..))).))))))).-.....))))....((((((((((......))))))))))....... ( -27.90, z-score =  -2.50, R)
>droGri2.scaffold_14830 4495131 104 + 6267026
--------------UCUUUUUCGUGUCCCACGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
--------------.......((((...))))..(((((((.(((..(((.....)))..))).)))))))(-((.....)))...((((((((((......))))))))))....... ( -21.60, z-score =  -1.68, R)
>droVir3.scaffold_13047 3725804 103 - 19223366
---------------UCUUUUUGUGUCCCACGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU-CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
---------------.......(((...)))(..(((((((.(((..(((.....)))..))).))))))).-.)......((..(((((((((((......)))))))))))..)).. ( -20.50, z-score =  -1.28, R)
>consensus
____________CCCCGACGUCGGGUCCCAUGUUGAUAAUUCGAAAUUUGUAUUCCAAUCUUCAAAUUGUCU_CCAAAAUGGAAUUGAUUUUAUGCAGAUGAGCAUGAAAUUGUCUCAA
.............(((......))).........(((((((.(((..(((.....)))..))).)))))))..........((..(((((((((((......)))))))))))..)).. (-19.96 = -20.03 +   0.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:50:16 2011