Locus 15101

Sequence ID	dm3.chrX
Location	17,397,782 – 17,397,889
Length	107
Max. P	0.737655

overview

Window 8

Location	17,397,782 – 17,397,888
Length	106
Sequences	7
Columns	115
Reading direction	reverse
Mean pairwise identity	71.71
Shannon entropy	0.50041
G+C content	0.44833
Mean single sequence MFE	-28.14
Consensus MFE	-16.60
Energy contribution	-14.37
Covariance contribution	-2.23
Combinations/Pair	1.52
Mean z-score	-1.06
Structure conservation index	0.59
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.34
SVM RNA-class probability	0.650071
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17397782 106 - 22422827
GAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGAA------ACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACAA---GUGUGUGGAAAACGCAGAAAGUACAUU
...............(((.((((((((((..(((((((((((.------..)))))....(((.(((((....).)))).)))..---)))))).)))))).))))...)))... ( -30.30, z-score =  -1.40, R)
>droEre2.scaffold_4690 7737050 109 - 18748788
GAGAAACCGGAGAAAGUGAUUUGGUUUUCUAACACGCACCGAA------ACUUGGUCACAGUGGGCUGCAAAAGUCAAUGCACAAGUAGUGUGUGGAAAACGCAUAAAAUACAUU
.((((((((((........))))).)))))..(((((((....------(((((....((...((((.....))))..))..))))).))))))).................... ( -26.20, z-score =  -0.75, R)
>droYak2.chrX 16025973 106 - 21770863
GAGAAACCGGAGAAAGUGAUUUGGUUUUCUAACACGCACCGUA------ACUUGGUCACAGUGGGCUGCAAAAGUCAGUGGACAA---GUGUGUGGAAAACGCAGAAAAUACAUU
...............(((.((((((((((((.(((((((((..------...))))(((....((((.....)))).))).....---))))))))))))).))))...)))... ( -26.50, z-score =  -0.61, R)
>droSec1.super_17 1243586 106 - 1527944
GAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGAA------ACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACAA---GUGUGUGGAAAACGCAGAAAGUACAUU
...............(((.((((((((((..(((((((((((.------..)))))....(((.(((((....).)))).)))..---)))))).)))))).))))...)))... ( -30.30, z-score =  -1.40, R)
>droSim1.chrX 3524003 106 + 17042790
GAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGAA------ACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACAA---GUGUGUGGAAAACGCAGAAAGUACAUU
...............(((.((((((((((..(((((((((((.------..)))))....(((.(((((....).)))).)))..---)))))).)))))).))))...)))... ( -30.30, z-score =  -1.40, R)
>dp4.chrXL_group1a 8907872 113 - 9151740
AAAAAAUUAGAAAAGGAAAGUUGAUUUUCACUUGCAAAUCCAAGGGCGGGGCGGGGCGGGGAGGUUUCUUGGGGGCAAUGCGGAA--AAUGCCUAGAAUGGGAAAAUCAGCAAUU
...................((((((((((.(((((...(((......))).....))))).....((((...(((((.(......--).)))))))))...)))))))))).... ( -27.80, z-score =  -0.97, R)
>droPer1.super_15 1302043 108 - 2181545
AAAAAAUUAGAAAAGGAAAGUUGAUUUUCACUUGCAAACCCAA-----GGGAGGGGCGGGGAGGUUUCUUUGGGGCAAUGCGGAA--AAUGCCUAGAAUGGGAAAAUCAGGAAUU
....................(((((((((..(((((..((((.-----..(((..((......))..)))))))....)))))..--....((......)))))))))))..... ( -25.60, z-score =  -0.94, R)
>consensus
GAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGAA______ACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACAA___GUGUGUGGAAAACGCAGAAAAUACAUU
..(((((((((........)))))))))....(((..((((...........))))....)))((((.....)))).............(((((.....)))))........... (-16.60 = -14.37 +  -2.23)

alignment

secondary structure

dotplot

Window 9

Location	17,397,783 – 17,397,889
Length	106
Sequences	7
Columns	115
Reading direction	reverse
Mean pairwise identity	71.01
Shannon entropy	0.51306
G+C content	0.45694
Mean single sequence MFE	-28.14
Consensus MFE	-16.60
Energy contribution	-14.37
Covariance contribution	-2.23
Combinations/Pair	1.52
Mean z-score	-1.10
Structure conservation index	0.59
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.55
SVM RNA-class probability	0.737655
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17397783 106 - 22422827
CGAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGA------AACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACA---AGUGUGUGGAAAACGCAGAAAGUACAU
................(((.((((((((((..(((((((((((------...)))))....(((.(((((....).)))).))).---.)))))).)))))).))))...))).. ( -30.30, z-score =  -1.37, R)
>droEre2.scaffold_4690 7737051 109 - 18748788
CGAGAAACCGGAGAAAGUGAUUUGGUUUUCUAACACGCACCGA------AACUUGGUCACAGUGGGCUGCAAAAGUCAAUGCACAAGUAGUGUGUGGAAAACGCAUAAAAUACAU
..((((((((((........))))).)))))..(((((((...------.(((((....((...((((.....))))..))..))))).)))))))................... ( -26.20, z-score =  -0.72, R)
>droYak2.chrX 16025974 106 - 21770863
CGAGAAACCGGAGAAAGUGAUUUGGUUUUCUAACACGCACCGU------AACUUGGUCACAGUGGGCUGCAAAAGUCAGUGGACA---AGUGUGUGGAAAACGCAGAAAAUACAU
................(((.((((((((((((.(((((((((.------....))))(((....((((.....)))).)))....---.))))))))))))).))))...))).. ( -26.50, z-score =  -0.59, R)
>droSec1.super_17 1243587 106 - 1527944
CGAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGA------AACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACA---AGUGUGUGGAAAACGCAGAAAGUACAU
................(((.((((((((((..(((((((((((------...)))))....(((.(((((....).)))).))).---.)))))).)))))).))))...))).. ( -30.30, z-score =  -1.37, R)
>droSim1.chrX 3524004 106 + 17042790
CGAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGA------AACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACA---AGUGUGUGGAAAACGCAGAAAGUACAU
................(((.((((((((((..(((((((((((------...)))))....(((.(((((....).)))).))).---.)))))).)))))).))))...))).. ( -30.30, z-score =  -1.37, R)
>dp4.chrXL_group1a 8907873 112 - 9151740
-AAAAAAUUAGAAAAGGAAAGUUGAUUUUCACUUGCAAAUCCAAGGGCGGGGCGGGGCGGGGAGGUUUCUUGGGGGCAAUGCGGAA--AAUGCCUAGAAUGGGAAAAUCAGCAAU
-...................((((((((((.(((((...(((......))).....))))).....((((...(((((.(......--).)))))))))...))))))))))... ( -27.80, z-score =  -1.14, R)
>droPer1.super_15 1302044 108 - 2181545
CAAAAAAUUAGAAAAGGAAAGUUGAUUUUCACUUGCAAACCCAA-----GGGAGGGGCGGGGAGGUUUCUUUGGGGCAAUGCGGAA--AAUGCCUAGAAUGGGAAAAUCAGGAAU
.....................(((((((((..(((((..((((.-----..(((..((......))..)))))))....)))))..--....((......))))))))))).... ( -25.60, z-score =  -1.11, R)
>consensus
CGAGAAACCGGAGAAAGUGAUUUGGUUUUCGAACACGCACCGA______AACUUGGUCACAGUGGGCUGCAAAAGUCAGUGCACA___AGUGUGUGGAAAACGCAGAAAAUACAU
...(((((((((........)))))))))....(((..((((...........))))....)))((((.....)))).............(((((.....))))).......... (-16.60 = -14.37 +  -2.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:53:01 2011