Locus 7765

Sequence ID dm3.chr3L
Location 17,166,438 – 17,166,537
Length 99
Max. P 0.958265
window10683 window10684

overview

Window 3

Location 17,166,438 – 17,166,537
Length 99
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 79.42
Shannon entropy 0.38936
G+C content 0.57137
Mean single sequence MFE -25.65
Consensus MFE -17.39
Energy contribution -16.92
Covariance contribution -0.47
Combinations/Pair 1.35
Mean z-score -2.02
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.65
SVM RNA-class probability 0.958265
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17166438 99 + 24543557
GGCCUGCGUGAGUGGCAACCUCUUGCCACCCACA-CUACCCAACCCCCUCGGACGCCAUGGAACC-ACCGCCUCUCCACUGCAGACAGAAAAAAAUAUUGA
...(((((((.(((((((....))))))).))).-...............(((.((..((....)-)..))...)))...))))................. ( -25.80, z-score =  -2.55, R)
>droSim1.chr3R 9413661 99 + 27517382
GGCCUGCGUGAGUGGCAACCUCUUGCCACCCACA-CUACCCACCCCCCUCGGACGCCAUGGACCC-ACCGCCUCUUCAAUGCAGACAGAAAAAAAUAUUUA
...(((((((.(((((((....))))))).))).-...............(((.((..((....)-)..)).))).....))))................. ( -24.80, z-score =  -2.46, R)
>droSec1.super_0 9218451 98 + 21120651
GGCCUGCGUGAGUGGCAACCUCUUGCCACCCACA-CUACCCACCCCCCUUGGACGCCUUGGACCC-ACCGCCUCUUCACUGCAGACAGAAAAAAA-ACUGA
...(((((((.(((((((....))))))).))).-...............(((.((..((....)-)..)).))).....)))).(((.......-.))). ( -26.10, z-score =  -2.48, R)
>droYak2.chr3L 7288239 99 - 24197627
GGCCUGCGUGAGUGGCAACCUCUUGCCACCCGCAGUUCCCCACCCCCUUUGGACUCCUUGGACCC-ACCGCCUCUCCACUACACUCAGAAAAAAU-AUUUA
((((((((.(.(((((((....)))))))))))))..............(((..((....)).))-)..))).......................-..... ( -25.20, z-score =  -2.69, R)
>droEre2.scaffold_4784 9077849 98 - 25762168
GGCCUGCGUGAGUGGCAACCUCUUGCCACCCACG-AAACCCACCCCCUUUGGACUCCUUGGACCC-AACGCCUCUUCACUACAGACAGAGAAAAG-GUUGA
((....((((.(((((((....))))))).))))-....))....(((((((..((....)).))-.....((((((......)).)))).))))-).... ( -28.10, z-score =  -1.68, R)
>droAna3.scaffold_13337 7289691 95 + 23293914
GGCCUGCGUGAGUGGCAGCCUCUUGCCUCCCUCG-----ACAGCCCGCCAGGAUCCUUUCUUCAAGACUGUCCCACCGAUGCAC-UGAAGAAAAUUAUUGA
(((..((.((((.(((((....)))))...))))-----...))..))).......((((((((.....(((.....)))....-))))))))........ ( -23.90, z-score =  -0.30, R)
>consensus
GGCCUGCGUGAGUGGCAACCUCUUGCCACCCACA_CUACCCACCCCCCUUGGACGCCUUGGACCC_ACCGCCUCUCCACUGCAGACAGAAAAAAA_AUUGA
(((....(((.(((((((....))))))).))).............((..((...))..))........)))............................. (-17.39 = -16.92 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,166,438 – 17,166,537
Length 99
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 79.42
Shannon entropy 0.38936
G+C content 0.57137
Mean single sequence MFE -35.70
Consensus MFE -23.26
Energy contribution -24.60
Covariance contribution 1.34
Combinations/Pair 1.08
Mean z-score -1.61
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.798444
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17166438 99 - 24543557
UCAAUAUUUUUUUCUGUCUGCAGUGGAGAGGCGGU-GGUUCCAUGGCGUCCGAGGGGGUUGGGUAG-UGUGGGUGGCAAGAGGUUGCCACUCACGCAGGCC
.((((.(((((..(((....)))..)))))((.((-(....))).))..((....))))))(((.(-((((((((((((....)))))))))))))..))) ( -37.90, z-score =  -2.05, R)
>droSim1.chr3R 9413661 99 - 27517382
UAAAUAUUUUUUUCUGUCUGCAUUGAAGAGGCGGU-GGGUCCAUGGCGUCCGAGGGGGGUGGGUAG-UGUGGGUGGCAAGAGGUUGCCACUCACGCAGGCC
............((..(((.(.(((..((.((.((-(....))).)).))))).).)))..))..(-((((((((((((....)))))))))))))..... ( -39.20, z-score =  -2.83, R)
>droSec1.super_0 9218451 98 - 21120651
UCAGU-UUUUUUUCUGUCUGCAGUGAAGAGGCGGU-GGGUCCAAGGCGUCCAAGGGGGGUGGGUAG-UGUGGGUGGCAAGAGGUUGCCACUCACGCAGGCC
...((-((((((.(((....))).))))))))...-.((((....((.(((...))).)).....(-((((((((((((....))))))))))))).)))) ( -38.50, z-score =  -2.33, R)
>droYak2.chr3L 7288239 99 + 24197627
UAAAU-AUUUUUUCUGAGUGUAGUGGAGAGGCGGU-GGGUCCAAGGAGUCCAAAGGGGGUGGGGAACUGCGGGUGGCAAGAGGUUGCCACUCACGCAGGCC
...((-((((.....))))))...((....((((.-.(.(((....(.(((....))).)..))).)..)(((((((((....))))))))).)))...)) ( -30.50, z-score =  -0.62, R)
>droEre2.scaffold_4784 9077849 98 + 25762168
UCAAC-CUUUUCUCUGUCUGUAGUGAAGAGGCGUU-GGGUCCAAGGAGUCCAAAGGGGGUGGGUUU-CGUGGGUGGCAAGAGGUUGCCACUCACGCAGGCC
....(-((((((.(((....))).)))))))..((-(((((....)).)))))........(((((-((((((((((((....)))))))))))).))))) ( -39.70, z-score =  -2.26, R)
>droAna3.scaffold_13337 7289691 95 - 23293914
UCAAUAAUUUUCUUCA-GUGCAUCGGUGGGACAGUCUUGAAGAAAGGAUCCUGGCGGGCUGU-----CGAGGGAGGCAAGAGGCUGCCACUCACGCAGGCC
.......(((((((((-(.((.((.....))..)).)))))))))).........((.(((.-----((.(((.((((......)))).))).))))).)) ( -28.40, z-score =   0.41, R)
>consensus
UCAAU_UUUUUUUCUGUCUGCAGUGAAGAGGCGGU_GGGUCCAAGGCGUCCAAGGGGGGUGGGUAG_UGUGGGUGGCAAGAGGUUGCCACUCACGCAGGCC
...............((((((..................((((.....(((....))).)))).....(((((((((((....))))))))))))))))). (-23.26 = -24.60 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:33:01 2011