Locus 7617

Sequence ID dm3.chr3L
Location 15,917,955 – 15,918,207
Length 252
Max. P 0.995719
window10486 window10487

overview

Window 6

Location 15,917,955 – 15,918,087
Length 132
Sequences 5
Columns 133
Reading direction reverse
Mean pairwise identity 97.74
Shannon entropy 0.03819
G+C content 0.49245
Mean single sequence MFE -43.04
Consensus MFE -41.12
Energy contribution -41.32
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -3.20
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.84
SVM RNA-class probability 0.995719
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15917955 132 - 24543557
GGCAAGUGCUUUCUCUCAGAGAGCGCUCUCUUCCUUUUGGCACGGCACGC-UUUUACAGUUAUACAGCAGAGCGCGGCUUUUCACAAGCCUCGCUCCAUAAAAUCAUUCAGUUUGUAGACAACGUUUGCCGUG
((..(((((((((.....)))))))))..)).((....))(((((((.((-.(((((((((....))).(((((.(((((.....))))).))))).................))))))....)).))))))) ( -43.40, z-score =  -3.22, R)
>droEre2.scaffold_4784 18171436 133 - 25762168
GGAACGUGCUUUCUCUCAGAGAGCGCUCUCUUCCUUUUGGCACGCCACGCUUUUUACAGUUAUACAGCAGAGCGCGGCUUUUCGCAAGCCUCGCUCCAUAAAAUCAUUCAGUUUGUAGACAACGUUUGCCGUG
((((.((((((((.....))))))))....))))....((((....(((...(((((((((....))).(((((.(((((.....))))).))))).................))))))...))).))))... ( -39.90, z-score =  -2.05, R)
>droYak2.chr3L 18520439 133 - 24197627
GGAACGUGCUUUCUCUCAGAGAGCGCUCUCUUCCUUUUGCCACGGCACGCUUUUUACAGUUAUACAGCAGAGCGCGGCUUUUCACAAGCCUCGCUCCAUAAAAUCAUUCAGUUUGUAGACAACGUUUGCCGUG
((((.((((((((.....))))))))....))))......(((((((.(((((((((((((....))).(((((.(((((.....))))).))))).................)))))).)).)).))))))) ( -45.10, z-score =  -4.26, R)
>droSec1.super_0 8024888 132 - 21120651
GGCAAGUGCUUUCUCUCAGAGAGCGCUCUCUUCCUUUUGGCACGGCACGC-UUUUACAGUUAUACAGCAGAGCGCGGCUUUUCACAAGCCUCGCUCCAUAAAAUCAUUCAGUUUGUAGACAACGUUUGCCGUG
((..(((((((((.....)))))))))..)).((....))(((((((.((-.(((((((((....))).(((((.(((((.....))))).))))).................))))))....)).))))))) ( -43.40, z-score =  -3.22, R)
>droSim1.chr3L 15264176 132 - 22553184
GGCAAGUGCUUUCUCUCAGAGAGCGCUCUCUUCCUUUUGGCACGGCACGC-UUUUACAGUUAUACAGCAGAGCGCGGCUUUUCACAAGCCUCGCUCCAUAAAAUCAUUCAGUUUGUAGACAACGUUUGCCGUG
((..(((((((((.....)))))))))..)).((....))(((((((.((-.(((((((((....))).(((((.(((((.....))))).))))).................))))))....)).))))))) ( -43.40, z-score =  -3.22, R)
>consensus
GGCAAGUGCUUUCUCUCAGAGAGCGCUCUCUUCCUUUUGGCACGGCACGC_UUUUACAGUUAUACAGCAGAGCGCGGCUUUUCACAAGCCUCGCUCCAUAAAAUCAUUCAGUUUGUAGACAACGUUUGCCGUG
.....((((((((.....))))))))..............(((((((.((..(((((((((....))).(((((.(((((.....))))).))))).................))))))....)).))))))) (-41.12 = -41.32 +   0.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,918,087 – 15,918,207
Length 120
Sequences 6
Columns 128
Reading direction forward
Mean pairwise identity 71.93
Shannon entropy 0.53393
G+C content 0.53893
Mean single sequence MFE -45.62
Consensus MFE -27.07
Energy contribution -27.22
Covariance contribution 0.15
Combinations/Pair 1.51
Mean z-score -1.32
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.18
SVM RNA-class probability 0.905649
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15918087 120 + 24543557
-------GUAUUGUUGUUGCUAUCGCCGUGGUGGUAGUUUCGCGGCCACAGGGUGA-CUCCCGCACGUAGCGUUUACCCUGUGGAAGAGACAACAUGCGCAAGGCACAGUGGGCCAAUUCCAGUAGGA
-------((((.((((((((((((((....)))))))).((....(((((((((((-....(((.....))).)))))))))))..))))))))))))....(((.......)))...(((....))) ( -47.10, z-score =  -1.80, R)
>droSim1.chr3L 15264308 123 + 22553184
---GUAUU-GUUGUUGUUGCUGCCGCCGUGGUGGUAGUUUCGCGACCACAGGGUGA-CUCCGGCACGUAGCGCUUACCCUGUGGAAGAGACAACAUGCGCAAGGCACAGUGGGCCAAUUCCAGUCGGA
---((((.-(((((((..((((((((....))))))))..)....(((((((((((-.....((.....))..)))))))))))....))))))))))....(((.......)))...(((....))) ( -48.00, z-score =  -1.01, R)
>droSec1.super_0 8025020 124 + 21120651
---GUAUUUGUUGUUGUUGCUGCCGCCGUGGUGGUAGUUUCGCGACCACAGGGUGA-CUCCGGCACGUAGCGUUUACCCUGUGGAAGAGACAACAUGCGCAAGGCACAGUGGGCCAAAUCCAUUCGGA
---((...((((((((..((((((((....))))))))..)....(((((((((((-.....((.....))..)))))))))))....)))))))...))..(((.......)))...(((....))) ( -47.10, z-score =  -1.21, R)
>droYak2.chr3L 18520572 127 + 24197627
AUGUUUUCUGUUGUUGUUGCUGCUGCCGUGGUGGUGGUUUCGCGGCCACAGGGUGA-CUCCCGCACGCCGCGUUUACCCUGUAGAAGAGACUACAUGCGCGAGGCACAGUGGACUAAUUCGAGUCAUG
(((.(((..((((...(..(((.((((.(((((((((((((....(.(((((((((-....(((.....))).))))))))).)..)))))))).))).)).)))))))..)..))))..))).))). ( -43.70, z-score =  -0.06, R)
>droEre2.scaffold_4784 18171569 127 + 25762168
AUGUUUUCUGUUGUUGUUGCUGCUGCUGUGGUGGUAGUUUCGCGGCCACAGGGUGA-CUCCCGCACGCAGGGCUCACCCUGUGGAAGAGACUACAUGCGCGAGGCACAGUGGUGCAAUUCUAGUCAGU
.......((((((..(((((.((..(((((...((((((((....(((((((((((-..(((.......))).)))))))))))..))))))))...(....).)))))..)))))))..))).))). ( -59.90, z-score =  -3.54, R)
>triCas2.ChLG3 7310182 111 - 32080666
--------CAUUGAUAUUUUAAACAUGUCCGGGGUGGUUUUGCAUACGAAAAUUGCUCUUCACCUGGUCGCGAUUAGCACGUGGAUGGAG-----UGCGCAAG----AAUGUAUAAUUUUUCGAUGGA
--------(((((((((((((..(((((.(.((((((....(((.........)))...)))))).)..((.....)))))))..)))))-----))(....)----.............)))))).. ( -27.90, z-score =  -0.30, R)
>consensus
____U_UCUGUUGUUGUUGCUGCCGCCGUGGUGGUAGUUUCGCGGCCACAGGGUGA_CUCCCGCACGUAGCGUUUACCCUGUGGAAGAGACAACAUGCGCAAGGCACAGUGGGCCAAUUCCAGUCGGA
.......((((((((.((((((((((....))))))(((((....(((((((((((.(.............).)))))))))))..))))).......)))).).)))))))................ (-27.07 = -27.22 +   0.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:30:17 2011