Locus 8207

Sequence ID dm3.chr3L
Location 21,028,424 – 21,028,539
Length 115
Max. P 0.689786
window11278 window11279

overview

Window 8

Location 21,028,424 – 21,028,539
Length 115
Sequences 5
Columns 131
Reading direction forward
Mean pairwise identity 61.59
Shannon entropy 0.67860
G+C content 0.32420
Mean single sequence MFE -25.20
Consensus MFE -8.34
Energy contribution -10.06
Covariance contribution 1.72
Combinations/Pair 1.25
Mean z-score -1.46
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.21
SVM RNA-class probability 0.597075
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21028424 115 + 24543557
-----AUCUAGUAAU-AUA-----UUCAAA-----UAUCUGUUAAAUAAGGGUGAAUUAAUGGCAUAUCAUAUUUUCCUAUUGGACAUCCCGCUUAAAUGGAAACUUCCAAUAGGAAGAGAUGCACUUUAA
-----.....((...-..(-----((((..-----..(((........))).))))).....))....(((.(((((((((((((....(((......))).....))))))))))))).)))........ ( -25.20, z-score =  -1.68, R)
>droYak2.chr3L 4697302 123 - 24197627
-----CUAUGAUAACCAUACCAUCUCAAAACUUGAUAUAUAUUUUAUAAGGGUGAAUUCAGGGCAUAU-AGCUUUUCCUAUUGGGCAUUCAGAGU--AUGGGAUCUUCCAAUAGGAAAAUAUGGAAUUCUU
-----.((((.....))))..........((((..((((.....)))).))))((((((..(((....-.)))((((((((((((.((((.....--...))))..)))))))))))).....)))))).. ( -26.20, z-score =  -0.31, R)
>droSec1.super_11 916739 120 + 2888827
-----AACUAGUAAU-ACGCUAUCUUAAAA-----UCUAUUUUAUAUAAGAGCGAAUUCAUGGCAAAUAAGCUUUUCCUAUUGUACAUACCGCUUAGAUGGAAACUUCCAAUAGGAAAAAUUGAACUUUAC
-----.....((((.-.((((....(((((-----....)))))......))))..((((..((......))(((((((((((......(((......))).......)))))))))))..))))..)))) ( -19.92, z-score =  -1.18, R)
>droSim1.chr3L 20374953 120 + 22553184
-----AUCUAGUAAU-AUGCUAUCUUAAAA-----UCUAUUUUAUAUAAGGGUGAAUUGAUGGCAUAUCAGCUUUUCCUAUUGGACAUUCCGCUUAAAUGGGAACUUCCAAUAGAAAAAUAUGAACUUAAC
-----.........(-((((((((.....(-----(((...........)))).....)))))))))(((..((((.((((((((..((((.(......)))))..)))))))).))))..)))....... ( -30.60, z-score =  -3.67, R)
>anoGam1.chrU 54890818 120 + 59568033
AUUGGGCGCAACGAACAUUGUCCUUGUAGA-----UCUUUGCCACUAGUGGGCUAGGCAAU--CAGAUAAUGAUUGAUUAUCAAUAACACAGGAUAGACGA----UUACUAUAGGAAGAAACUUACUUCAA
...(((((..........)))))(((((((-----((((((((..(((....)))))))).--.))))..((((((.(((((..........))))).)))----)))))))))((((.......)))).. ( -24.10, z-score =  -0.46, R)
>consensus
_____AUCUAGUAAU_AUACUAUCUUAAAA_____UCUAUGUUAUAUAAGGGUGAAUUAAUGGCAUAUAAGCUUUUCCUAUUGGACAUACCGCUUAAAUGGAAACUUCCAAUAGGAAAAAAUGAACUUCAA
........................................................................(((((((((((((....(((......))).....)))))))))))))............ ( -8.34 = -10.06 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 21,028,424 – 21,028,539
Length 115
Sequences 5
Columns 131
Reading direction reverse
Mean pairwise identity 61.59
Shannon entropy 0.67860
G+C content 0.32420
Mean single sequence MFE -24.66
Consensus MFE -8.24
Energy contribution -11.52
Covariance contribution 3.28
Combinations/Pair 1.22
Mean z-score -1.56
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.689786
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21028424 115 - 24543557
UUAAAGUGCAUCUCUUCCUAUUGGAAGUUUCCAUUUAAGCGGGAUGUCCAAUAGGAAAAUAUGAUAUGCCAUUAAUUCACCCUUAUUUAACAGAUA-----UUUGAA-----UAU-AUUACUAGAU-----
.....(.((((.(((((((((((((...((((........))))..))))))))))).....)).)))))....(((((....((((.....))))-----..))))-----)..-..........----- ( -26.10, z-score =  -2.29, R)
>droYak2.chr3L 4697302 123 + 24197627
AAGAAUUCCAUAUUUUCCUAUUGGAAGAUCCCAU--ACUCUGAAUGCCCAAUAGGAAAAGCU-AUAUGCCCUGAAUUCACCCUUAUAAAAUAUAUAUCAAGUUUUGAGAUGGUAUGGUUAUCAUAG-----
..((((((....((((((((((((.(((......--..)))......))))))))))))((.-....))...))))))(((.((.((((((.........)))))).)).))).............----- ( -25.00, z-score =  -1.14, R)
>droSec1.super_11 916739 120 - 2888827
GUAAAGUUCAAUUUUUCCUAUUGGAAGUUUCCAUCUAAGCGGUAUGUACAAUAGGAAAAGCUUAUUUGCCAUGAAUUCGCUCUUAUAUAAAAUAGA-----UUUUAAGAUAGCGU-AUUACUAGUU-----
((((((((((..(((((((((((...((..((........)).))...)))))))))))((......))..))))))((((((((...........-----...)))))..))).-.)))).....----- ( -24.54, z-score =  -1.57, R)
>droSim1.chr3L 20374953 120 - 22553184
GUUAAGUUCAUAUUUUUCUAUUGGAAGUUCCCAUUUAAGCGGAAUGUCCAAUAGGAAAAGCUGAUAUGCCAUCAAUUCACCCUUAUAUAAAAUAGA-----UUUUAAGAUAGCAU-AUUACUAGAU-----
............(((((((((((((.((((((......).))))).)))))))))))))..((((((((.(((.......................-----......))).))))-))))......----- ( -28.85, z-score =  -3.44, R)
>anoGam1.chrU 54890818 120 - 59568033
UUGAAGUAAGUUUCUUCCUAUAGUAA----UCGUCUAUCCUGUGUUAUUGAUAAUCAAUCAUUAUCUG--AUUGCCUAGCCCACUAGUGGCAAAGA-----UCUACAAGGACAAUGUUCGUUGCGCCCAAU
..((((.......)))).....((((----((((...((((.(((....(((...((((((.....))--))))....((((....).)))....)-----)).)))))))..)))...)))))....... ( -18.80, z-score =   0.64, R)
>consensus
GUAAAGUUCAUAUUUUCCUAUUGGAAGUUCCCAUCUAAGCGGAAUGUCCAAUAGGAAAAGCUGAUAUGCCAUGAAUUCACCCUUAUAUAAAAUAGA_____UUUUAAGAUAGCAU_AUUACUAGAU_____
............(((((((((((((.(((((.........))))).)))))))))))))........................................................................ ( -8.24 = -11.52 +   3.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:41:18 2011