Locus 11826

Sequence ID	dm3.chr3R
Location	24,099,547 – 24,099,678
Length	131
Max. P	0.993955

overview

Window 0

Location	24,099,547 – 24,099,653
Length	106
Sequences	7
Columns	115
Reading direction	reverse
Mean pairwise identity	79.08
Shannon entropy	0.40364
G+C content	0.44552
Mean single sequence MFE	-33.07
Consensus MFE	-19.61
Energy contribution	-21.14
Covariance contribution	1.54
Combinations/Pair	1.29
Mean z-score	-1.78
Structure conservation index	0.59
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.78
SVM RNA-class probability	0.816418
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24099547 106 - 27905053
UAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAAGAGUCAGC---------GAGUUAUCAAGUGGCUUUUGUGGAUUUUGUCAGCUGCAUCGUGGUAACU
.........(((((((((((..(((.((((((.....)))))).))).)))))))))---------))(((((((.(..(((..((.......))..)))..)....))))))). ( -33.90, z-score =  -1.75, R)
>droSim1.chr3R 23783529 106 - 27517382
UAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAGGAGUCAGC---------GAGUUAUCAAGUGGCUUUUGUGGAUUUUGUCAGCUGCACCGUGGUAACU
.........(((((((((((..(((.((((((.....)))))).))).)))))))))---------))(((((((.(..(((..((.......))..)))..)....))))))). ( -33.80, z-score =  -1.36, R)
>droSec1.super_22 703977 106 - 1066717
UAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAGGAGUCAGC---------GAGUUAUCAAGUGGCUUUUGUGGAUUUUGUCAGCUGCACCGUGGUAACU
.........(((((((((((..(((.((((((.....)))))).))).)))))))))---------))(((((((.(..(((..((.......))..)))..)....))))))). ( -33.80, z-score =  -1.36, R)
>droYak2.chr3R 6426893 106 + 28832112
UAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAGGAGUCGGC---------GGGUUAUCAAGUGGCUUUUGUGGAUUUUGUCAGUUGCACCUUGGUAACU
..........((((((((((..(((.((((((.....)))))).))).)))))))))---------)((((((((((..((..(((..........)))..))..)))))))))) ( -35.90, z-score =  -2.56, R)
>droEre2.scaffold_4820 6519954 106 + 10470090
UAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUGGCAGAUGGAGCCGGAGUCGGC---------GAGUUAUCAAGUGGCUUUUGUGGAUUUUGUCAGUUGCACCUUGGUAACU
.........(((((((((((..(((.((((((.....)))))).))).)))))))))---------))(((((((((..((..(((..........)))..))..))))))))). ( -36.60, z-score =  -2.39, R)
>droAna3.scaffold_13340 22228396 114 - 23697760
UAAGAAUUUUUGUUGGCUUAACGCUGCAUUUGGA-AGCAGAUGGAGCGGGAUGUGGCAGAUACAGAGAGUUAGCGAGUGGCUUUGGUGGAUUUUGUCAGGUGCACCUAGGUUACU
.........((((((((((..((((.((((((..-..)))))).))))...((((.....))))..))))))))))(((((((.((((.(((......))).)))).))))))). ( -40.90, z-score =  -3.98, R)
>droWil1.scaffold_181089 8280906 108 - 12369635
GAAAACCUUUAGUGGCCAUUUCGAAAGAUUCGCAUUGCAUAU-UAGUUAGUUCUUUCA------GUCGAUCUUUGAGUUGUGUUUUUGUUAUUUGUCACAAGCUUCUAGCUAACU
...........(((((....((....))...(((..(((((.-.....((.((.....------...)).))......)))))...))).....))))).(((.....))).... ( -16.60, z-score =   0.90, R)
>consensus
UAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAGGAGUCAGC_________GAGUUAUCAAGUGGCUUUUGUGGAUUUUGUCAGCUGCACCUUGGUAACU
...........(((((((((..(((.((((((.....)))))).))).)))))))))..........((((((((....((..(((..........)))..))....)))))))) (-19.61 = -21.14 +   1.54)

alignment

secondary structure

dotplot

Window 1

Location	24,099,587 – 24,099,678
Length	91
Sequences	7
Columns	112
Reading direction	reverse
Mean pairwise identity	69.76
Shannon entropy	0.55949
G+C content	0.45879
Mean single sequence MFE	-28.99
Consensus MFE	-18.07
Energy contribution	-17.76
Covariance contribution	-0.32
Combinations/Pair	1.50
Mean z-score	-1.93
Structure conservation index	0.62
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.66
SVM RNA-class probability	0.993955
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24099587 91 - 27905053
---------CUGGGGAAUGCCUGGGGU-UUUUUAAUAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAA--GAGUCAGCGAGUUAUCA---------
---------(..((.....))..)(((-(((.....)))))).((((((((((((..(((.((((((.....)))))).))).)--)))))))))))......--------- ( -30.20, z-score =  -2.82, R)
>droSim1.chr3R 23783569 99 - 27517382
CUGUCUGCUCUGGGGAAUGCCUGGGG--UUUUUAAUAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAG--GAGUCAGCGAGUUAUCA---------
..((((((((..((.....))..)))--)........))))..((((((((((((..(((.((((((.....)))))).))).)--)))))))))))......--------- ( -34.80, z-score =  -2.43, R)
>droSec1.super_22 704017 81 - 1066717
--------------------CUGGGGUGUUUUUAAUAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAG--GAGUCAGCGAGUUAUCA---------
--------------------....((((((((....)))))..((((((((((((..(((.((((((.....)))))).))).)--)))))))))))..))).--------- ( -25.00, z-score =  -2.61, R)
>droYak2.chr3R 6426933 100 + 28832112
UUGUCUGCUCUGGGAAAUGCCUGGGGU-UUUUUAAUAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAG--GAGUCGGCGGGUUAUCA---------
..((((((((..((.....))..))))-.........))))..((((((((((((..(((.((((((.....)))))).))).)--)))))))))))......--------- ( -32.90, z-score =  -2.18, R)
>droEre2.scaffold_4820 6519994 99 + 10470090
UUGUCUGCUCGGGGGAAAGCCUGGGG--UUUUUAAUAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUGGCAGAUGGAGCCG--GAGUCGGCGAGUUAUCA---------
(((((.((((.(...((((((.((((--((((....)))))))).....))))))..(((.((((((.....)))))).)))).--)))).))))).......--------- ( -33.10, z-score =  -1.57, R)
>droAna3.scaffold_13340 22228436 104 - 23697760
---UUGGCGCCAGGGGAUGCCAGGGG--UUUUUAAUAAGAAUUUUUGUUGGCUUAACGCUGCAUUUGGA-AGCAGAUGGAGCGG--GAUGUGGCAGAUACAGAGAGUUAGCG
---..((((((...)).))))(((((--((((.....)))))))))((((((((..((((.((((((..-..)))))).)))).--..((((.....))))..)))))))). ( -32.10, z-score =  -2.59, R)
>droWil1.scaffold_181089 8280946 93 - 12369635
---------CAAGGUGAGGCCUGUUGU-UUAUUAAGAAAACCUUUAGUGGCCAUUUCGAAAGAUUCGCAUUGCAUAUUAGUUAGUUCUUUCAGUCGAUCUUUG---------
---------.(((((((((((....((-((.......)))).......)))).....((((((...((...((......))..))))))))..)).)))))..--------- ( -14.80, z-score =   0.73, R)
>consensus
___U__GC_CUGGGGAAUGCCUGGGGU_UUUUUAAUAAGACUUUUUGUUGGCUUUACGCUGCAUUUGGGUAGCAGAUGGAGCAG__GAGUCAGCGAGUUAUCA_________
......................................((...(((((((((((...(((.((((((.....)))))).)))....)))))))))))...)).......... (-18.07 = -17.76 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:50:22 2011