Locus 2721

Sequence ID dm3.chr2L
Location 21,513,008 – 21,513,063
Length 55
Max. P 0.999910
window3736 window3737

overview

Window 6

Location 21,513,008 – 21,513,063
Length 55
Sequences 11
Columns 66
Reading direction forward
Mean pairwise identity 57.00
Shannon entropy 0.92648
G+C content 0.47988
Mean single sequence MFE -19.69
Consensus MFE -12.28
Energy contribution -13.32
Covariance contribution 1.04
Combinations/Pair 1.50
Mean z-score -2.15
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.84
SVM RNA-class probability 0.999910
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 21513008 55 + 23011544
AUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUAUUGUCCGCA---UUCGCAGGAGAAAA--------
.((((((((((....)))))).....((((....))))...---...)))).......-------- ( -20.10, z-score =  -2.58, R)
>droAna3.scaffold_13030 44769 54 - 47400
GUUGUGGCCCUGAAAAGGGCCUUUUUGGAUCAUUCUGCCCA----GCAAGCGAGCAAU--------
((((.((((((....)))))).....(((....)))...))----))...........-------- ( -17.50, z-score =  -0.99, R)
>droEre2.scaffold_4845 19565920 55 - 22589142
AUUGUGGCCCUGAAGAGGGCCGUUUUGGAUUUUUGUCCGCA---CUCGCAGGAGGAAA--------
..(((((((((....)))))).....((((....)))))))---(((....)))....-------- ( -19.20, z-score =  -1.48, R)
>droYak2.chr2R_random 60460 58 - 67238
AUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUAAUGUCCGCAGCAUUCGUAGGAACAAA--------
.((((((((((....))))))(((.(((((....))))).)))..........)))).-------- ( -23.20, z-score =  -3.62, R)
>droSec1.super_91 112088 55 + 125313
AUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUGUUGUCCGCA---UUCGCAGGAGCCAA--------
.....((((((....))))))(((((((((....))))((.---...)).)))))...-------- ( -21.60, z-score =  -2.34, R)
>droSim1.chrU 7407726 55 - 15797150
AUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUGUUGUCCGCA---UUCGCAGGAGCCAA--------
.....((((((....))))))(((((((((....))))((.---...)).)))))...-------- ( -21.60, z-score =  -2.34, R)
>anoGam1.chr2R 47876183 55 + 62725911
UUUGUGGUCCUGAAAAGGACCGAUUUGAGAGAACGAAGCCAAUCAUUUCAGUGGC-----------
(((((((((((....))))))...((....)))))))((((..........))))----------- ( -16.60, z-score =  -2.43, R)
>droGri2.scaffold_14978 529167 60 + 1124632
UUUGUGGCCCUGAAAAGGGCCUUUUGCUGCUAGCUGCUCGCUG------GUAUUUCUGCCUGCAAU
.((((((((((....))))))......(((((((.....))))------))).........)))). ( -23.60, z-score =  -2.79, R)
>droMoj3.scaffold_6540 26878807 65 - 34148556
UUUGUGGCCCUGAAAAGGGCCUUUUGCUUCU-UCUUUUGGAUGUUCUGCAUACACCGAGGUAAGAU
.....((((((....)))))).......(((-(.((((((.(((.......))))))))).)))). ( -22.60, z-score =  -2.92, R)
>droVir3.scaffold_13047 1628952 66 + 19223366
UUUGUGGCCCUGAAAAGGGCCUUUUGCUUUUGUUUGCUUCCCGUACAAUGCACAUCUAGCUGAAUU
.....((((((....))))))(((.(((...((.(((............))).))..))).))).. ( -18.20, z-score =  -1.84, R)
>droWil1.scaffold_181036 6031 60 + 110856
AUUGUGGCCCUGAAAAGGGUUUUUUUUUUAAAAGGAAGCGUGUGUUUAAGCUAGGGACAU------
.((.(((((((....)))((((((((.....))))))))..........)))).))....------ ( -12.40, z-score =  -0.37, R)
>consensus
AUUGUGGCCCUGAAAAGGGCCGUUUUGGAUUAUUGUCCGCA___UUCGCAGGAGCCAA________
.....((((((....))))))............................................. (-12.28 = -13.32 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 21,513,008 – 21,513,063
Length 55
Sequences 11
Columns 66
Reading direction reverse
Mean pairwise identity 57.00
Shannon entropy 0.92648
G+C content 0.47988
Mean single sequence MFE -15.57
Consensus MFE -10.82
Energy contribution -10.84
Covariance contribution 0.02
Combinations/Pair 1.17
Mean z-score -1.73
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.35
SVM RNA-class probability 0.999768
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 21513008 55 - 23011544
--------UUUUCUCCUGCGAA---UGCGGACAAUAAUCCAAAACGGCCCUUUUCAGGGCCACAAU
--------.......((((...---.))))...............((((((....))))))..... ( -15.70, z-score =  -2.52, R)
>droAna3.scaffold_13030 44769 54 + 47400
--------AUUGCUCGCUUGC----UGGGCAGAAUGAUCCAAAAAGGCCCUUUUCAGGGCCACAAC
--------.(((((((.....----))))))).............((((((....))))))..... ( -18.10, z-score =  -1.59, R)
>droEre2.scaffold_4845 19565920 55 + 22589142
--------UUUCCUCCUGCGAG---UGCGGACAAAAAUCCAAAACGGCCCUCUUCAGGGCCACAAU
--------.......((((...---.))))...............((((((....))))))..... ( -15.70, z-score =  -1.91, R)
>droYak2.chr2R_random 60460 58 + 67238
--------UUUGUUCCUACGAAUGCUGCGGACAUUAAUCCAAAACGGCCCUUUUCAGGGCCACAAU
--------(((((....)))))......(((......))).....((((((....))))))..... ( -15.40, z-score =  -2.01, R)
>droSec1.super_91 112088 55 - 125313
--------UUGGCUCCUGCGAA---UGCGGACAACAAUCCAAAACGGCCCUUUUCAGGGCCACAAU
--------(((..(((.((...---.)))))...)))........((((((....))))))..... ( -16.30, z-score =  -1.62, R)
>droSim1.chrU 7407726 55 + 15797150
--------UUGGCUCCUGCGAA---UGCGGACAACAAUCCAAAACGGCCCUUUUCAGGGCCACAAU
--------(((..(((.((...---.)))))...)))........((((((....))))))..... ( -16.30, z-score =  -1.62, R)
>anoGam1.chr2R 47876183 55 - 62725911
-----------GCCACUGAAAUGAUUGGCUUCGUUCUCUCAAAUCGGUCCUUUUCAGGACCACAAA
-----------((((..........))))................((((((....))))))..... ( -13.50, z-score =  -2.00, R)
>droGri2.scaffold_14978 529167 60 - 1124632
AUUGCAGGCAGAAAUAC------CAGCGAGCAGCUAGCAGCAAAAGGCCCUUUUCAGGGCCACAAA
.((((.((.(....).)------)(((.....)))....))))..((((((....))))))..... ( -20.30, z-score =  -2.35, R)
>droMoj3.scaffold_6540 26878807 65 + 34148556
AUCUUACCUCGGUGUAUGCAGAACAUCCAAAAGA-AGAAGCAAAAGGCCCUUUUCAGGGCCACAAA
.((((.....(((((.......)))))......)-))).......((((((....))))))..... ( -16.90, z-score =  -1.95, R)
>droVir3.scaffold_13047 1628952 66 - 19223366
AAUUCAGCUAGAUGUGCAUUGUACGGGAAGCAAACAAAAGCAAAAGGCCCUUUUCAGGGCCACAAA
......(((...(((((...)))))...)))..............((((((....))))))..... ( -18.30, z-score =  -1.74, R)
>droWil1.scaffold_181036 6031 60 - 110856
------AUGUCCCUAGCUUAAACACACGCUUCCUUUUAAAAAAAAAACCCUUUUCAGGGCCACAAU
------.((.(((((((..........)))...((((....))))..........)))).)).... (  -4.80, z-score =   0.27, R)
>consensus
________UUGGCUCCUGCGAA___UGCGGACAAUAAUCCAAAACGGCCCUUUUCAGGGCCACAAU
.............................................((((((....))))))..... (-10.82 = -10.84 +   0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:56:35 2011