Locus 2782

Sequence ID dm3.chr2L
Location 22,318,066 – 22,318,178
Length 112
Max. P 0.968726
window3826 window3827

overview

Window 6

Location 22,318,066 – 22,318,178
Length 112
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 82.74
Shannon entropy 0.25630
G+C content 0.39446
Mean single sequence MFE -27.47
Consensus MFE -22.50
Energy contribution -22.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.935832
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22318066 112 + 23011544
UUUGAGUGGCAAAUGAGAGCAAGAGAAGCUUGCUCUCUGAGAGAGUAAUAAAGUUGCCAAACAGAUGAUAUGCAAUCUUAUAUUUCCAACAGGACCACCUUGGGACUUACCU
((((..((((((..(((((((((.....)))))))))(....)..........))))))..))))..................(((((..(((....))))))))....... ( -28.90, z-score =  -1.55, R)
>droSim1.chr2L_random 889169 91 + 909653
UUUGAGUGGCAAAUGAGAGCAAGAGAAGCUUGCUCUCUGAGAGAGUAGUAAAGUUGCCAGACCGAUGAUAUGCAAUCUUAUAUUUCCAACA---------------------
......(((.(((((((((((((.....)))))))))(((((..(((.....((((......))))....)))..))))).)))))))...--------------------- ( -24.60, z-score =  -2.04, R)
>droSec1.super_112 64358 112 - 109131
UUUGAGUGGCAAAUGAGAGCAAGAGAAGCUUGCUCUCUGAGAGAGUAAUAAAGUUGCCAGACAGAUGAUAUGCAAUCUUAUAUUUCCAACAGGAUAAUACAAGGAUUAACUU
((((..((((((..(((((((((.....)))))))))(....)..........))))))..))))........((((((.(((((((....))).))))..))))))..... ( -28.90, z-score =  -2.39, R)
>consensus
UUUGAGUGGCAAAUGAGAGCAAGAGAAGCUUGCUCUCUGAGAGAGUAAUAAAGUUGCCAGACAGAUGAUAUGCAAUCUUAUAUUUCCAACAGGA__A_____GGA_U_AC_U
......(((.(((((((((((((.....)))))))))(((((..(((.....(((........)))....)))..))))).)))))))........................ (-22.50 = -22.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 22,318,066 – 22,318,178
Length 112
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 82.74
Shannon entropy 0.25630
G+C content 0.39446
Mean single sequence MFE -26.78
Consensus MFE -21.17
Energy contribution -21.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.36
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.80
SVM RNA-class probability 0.968726
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22318066 112 - 23011544
AGGUAAGUCCCAAGGUGGUCCUGUUGGAAAUAUAAGAUUGCAUAUCAUCUGUUUGGCAACUUUAUUACUCUCUCAGAGAGCAAGCUUCUCUUGCUCUCAUUUGCCACUCAAA
.((......))..((((((..((..(((...(((((.((((....(....)....)))).)))))...)))..))(((((((((.....)))))))))....)))))).... ( -30.20, z-score =  -1.83, R)
>droSim1.chr2L_random 889169 91 - 909653
---------------------UGUUGGAAAUAUAAGAUUGCAUAUCAUCGGUCUGGCAACUUUACUACUCUCUCAGAGAGCAAGCUUCUCUUGCUCUCAUUUGCCACUCAAA
---------------------..((((.......((((((........))))))(((((................(((((((((.....)))))))))..)))))..)))). ( -20.97, z-score =  -1.56, R)
>droSec1.super_112 64358 112 + 109131
AAGUUAAUCCUUGUAUUAUCCUGUUGGAAAUAUAAGAUUGCAUAUCAUCUGUCUGGCAACUUUAUUACUCUCUCAGAGAGCAAGCUUCUCUUGCUCUCAUUUGCCACUCAAA
..((.((((.(((((((.(((....))))))))))))))))........((..((((((................(((((((((.....)))))))))..))))))..)).. ( -29.17, z-score =  -3.69, R)
>consensus
A_GU_A_UCC_____U__UCCUGUUGGAAAUAUAAGAUUGCAUAUCAUCUGUCUGGCAACUUUAUUACUCUCUCAGAGAGCAAGCUUCUCUUGCUCUCAUUUGCCACUCAAA
.....................((..(((...(((((.((((....(....)....)))).)))))...)))..))(((((((((.....))))))))).............. (-21.17 = -21.50 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:57:49 2011