Locus 1387

Sequence ID dm3.chr2L
Location 10,769,666 – 10,769,726
Length 60
Max. P 0.901212
window1889 window1890

overview

Window 9

Location 10,769,666 – 10,769,726
Length 60
Sequences 8
Columns 60
Reading direction forward
Mean pairwise identity 76.85
Shannon entropy 0.49428
G+C content 0.54627
Mean single sequence MFE -12.80
Consensus MFE -8.41
Energy contribution -9.10
Covariance contribution 0.69
Combinations/Pair 1.36
Mean z-score -1.18
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.863253
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10769666 60 + 23011544
ACACUCACUGCUCCUGCUUGGUCUUCAGGUGCACCUGCACCUGCCCCUCGCCGUUAUCCA
...............((..((....(((((((....)))))))..))..))......... ( -15.40, z-score =  -2.02, R)
>droSim1.chr2L 10570705 60 + 22036055
ACACUCACUGCUCCUGCUUGGUCUUCAGGUGCACCUGCACCUGCCCCUCGCCGUUAUCCA
...............((..((....(((((((....)))))))..))..))......... ( -15.40, z-score =  -2.02, R)
>droSec1.super_3 6188128 60 + 7220098
ACACUCACUGCUCUUGCUUGGUCUUCAGGUGCACCUGCACCUGCCCCUCGCCGUUAUCCA
...............((..((....(((((((....)))))))..))..))......... ( -15.40, z-score =  -2.07, R)
>droYak2.chr2L 7175040 60 + 22324452
ACACUCACUGCUCCUGCUUGGUUUUCAGGUGCACCUGCACCUGCCCCUCACCGUUUUCCA
.........((....))..(((...(((((((....)))))))......)))........ ( -15.00, z-score =  -2.31, R)
>droEre2.scaffold_4929 11979889 60 - 26641161
ACACUCACUGCUCCUGCUUGGUUUUCAGGUGCACCUGCACCUGCCCCUCGCCGUUUUCCA
...............((..((....(((((((....)))))))..))..))......... ( -15.40, z-score =  -2.11, R)
>droAna3.scaffold_12916 14620265 60 + 16180835
AUACUUACUGCUCUUGUUUGGUCUUGAGGUGCACCUGCACCUGCCCCUCGCCGUUUUCCA
...................(((...(((((((....)))))).).....)))........ ( -11.40, z-score =  -0.67, R)
>anoGam1.chr2L 43949677 50 + 48795086
AUACGUACUGUUUCUGUUUGGUGGUGAAAUGCACCUGCAACUGGCCCUCG----------
...................((.(((.(..(((....)))..).))).)).---------- (  -7.40, z-score =   1.02, R)
>triCas2.ChLG5 10249478 57 + 18847211
---CAUACCAUUCUUGUUUUGUAACCAGUCGAAUUUGCAGUUGAGACUCACUGGAUUCCA
---.....................(((((.((.(((.......))).)))))))...... (  -7.00, z-score =   0.76, R)
>consensus
ACACUCACUGCUCCUGCUUGGUCUUCAGGUGCACCUGCACCUGCCCCUCGCCGUUUUCCA
...............((..((....(((((((....)))))))..))..))......... ( -8.41 =  -9.10 +   0.69)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 0

Location 10,769,666 – 10,769,726
Length 60
Sequences 8
Columns 60
Reading direction reverse
Mean pairwise identity 76.85
Shannon entropy 0.49428
G+C content 0.54627
Mean single sequence MFE -15.01
Consensus MFE -11.60
Energy contribution -12.23
Covariance contribution 0.63
Combinations/Pair 1.45
Mean z-score -1.01
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.16
SVM RNA-class probability 0.901212
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10769666 60 - 23011544
UGGAUAACGGCGAGGGGCAGGUGCAGGUGCACCUGAAGACCAAGCAGGAGCAGUGAGUGU
.........((..((..(((((((....)))))))....))..))............... ( -18.70, z-score =  -1.73, R)
>droSim1.chr2L 10570705 60 - 22036055
UGGAUAACGGCGAGGGGCAGGUGCAGGUGCACCUGAAGACCAAGCAGGAGCAGUGAGUGU
.........((..((..(((((((....)))))))....))..))............... ( -18.70, z-score =  -1.73, R)
>droSec1.super_3 6188128 60 - 7220098
UGGAUAACGGCGAGGGGCAGGUGCAGGUGCACCUGAAGACCAAGCAAGAGCAGUGAGUGU
.........((..((..(((((((....)))))))....))..))............... ( -18.70, z-score =  -1.91, R)
>droYak2.chr2L 7175040 60 - 22324452
UGGAAAACGGUGAGGGGCAGGUGCAGGUGCACCUGAAAACCAAGCAGGAGCAGUGAGUGU
........(((......(((((((....)))))))...)))..((....))......... ( -17.70, z-score =  -1.68, R)
>droEre2.scaffold_4929 11979889 60 + 26641161
UGGAAAACGGCGAGGGGCAGGUGCAGGUGCACCUGAAAACCAAGCAGGAGCAGUGAGUGU
.........((..((..(((((((....)))))))....))..))............... ( -18.70, z-score =  -1.76, R)
>droAna3.scaffold_12916 14620265 60 - 16180835
UGGAAAACGGCGAGGGGCAGGUGCAGGUGCACCUCAAGACCAAACAAGAGCAGUAAGUAU
(((......((.....))((((((....)))))).....))).................. ( -13.00, z-score =  -0.49, R)
>anoGam1.chr2L 43949677 50 - 48795086
----------CGAGGGCCAGUUGCAGGUGCAUUUCACCACCAAACAGAAACAGUACGUAU
----------...((((.....)).((((.....)))).))................... (  -7.10, z-score =   0.54, R)
>triCas2.ChLG5 10249478 57 - 18847211
UGGAAUCCAGUGAGUCUCAACUGCAAAUUCGACUGGUUACAAAACAAGAAUGGUAUG---
((....(((((((((...........)))).)))))...))................--- (  -7.50, z-score =   0.67, R)
>consensus
UGGAAAACGGCGAGGGGCAGGUGCAGGUGCACCUGAAGACCAAGCAGGAGCAGUGAGUGU
.........((...((.(((((((....)))))))....))..))............... (-11.60 = -12.23 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:30:57 2011