Locus 7770

Sequence ID dm3.chr3L
Location 17,176,836 – 17,176,983
Length 147
Max. P 0.911458
window10690 window10691

overview

Window 0

Location 17,176,836 – 17,176,946
Length 110
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 89.14
Shannon entropy 0.21272
G+C content 0.43288
Mean single sequence MFE -30.07
Consensus MFE -23.73
Energy contribution -23.98
Covariance contribution 0.25
Combinations/Pair 1.06
Mean z-score -2.17
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.22
SVM RNA-class probability 0.911458
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17176836 110 + 24543557
CCGUAUUUUUCCCUCAGCGUAUCGUUUUGUUGGAAAACGCAAAUUGCUAUUUUGUCAGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGA
........(((((((.(.(((((.....(((....)))...((((((((((((((..(.....)..))))))))))))))..(((.....))).))))).).))).)))) ( -30.20, z-score =  -1.87, R)
>droEre2.scaffold_4784 9087949 110 - 25762168
CUUUAUUUUUCCCUCAGCGUAUCGUUUUGUUGGAAAACGCAAAUUGCUAUUUUGUCUGAACAGCAAACGAGAUGGCAAUUCACUGGAAAGCAGAGAUACCCAGAGCGGGG
..........(((((((((........))))))....(((.((((((((((((((.((.....)).))))))))))))))..((((.............)))).)))))) ( -31.42, z-score =  -1.93, R)
>droYak2.chr3L 7298849 109 - 24197627
CUUUAUUUU-CCCUCAGCGUAUCGUUUUGUUGGAAAACGCAAAUUGCUAUUUUGUCUGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGC
........(-(((((.(.(((((.....(((....)))...((((((((((((((.((.....)).))))))))))))))..(((.....))).))))).).))).))). ( -31.40, z-score =  -2.36, R)
>droSec1.super_0 9228784 109 + 21120651
CCGUAUUUU-CCCACAGCGUAUCGUUUUGUUGGAAAACGCAAAUUGCUAUUUUGUCAGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGA
((...((((-((.((((((...)))..))).))))))(((.((((((((((((((..(.....)..))))))))))))))..((((.............)))).))))). ( -30.92, z-score =  -2.42, R)
>droSim1.chr3L 16511179 110 + 22553184
CAGUAUUUUUCCCUCAGCGUAUCGUUUUGUUGGAAAACGCAAAUUGCUAUUUUGUCAGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGA
........(((((((.(.(((((.....(((....)))...((((((((((((((..(.....)..))))))))))))))..(((.....))).))))).).))).)))) ( -30.20, z-score =  -2.07, R)
>droAna3.scaffold_13337 7300244 101 + 23293914
--------UUCUCCCAGCGUAUCGUUUC-UUGUAGAACGCAAAUUGCUAUUUUGUCUGAACAGAAAACGAGAUGGCAAUUCACAAAACGAAAGAGAUACCCGGCCAGAGA
--------.((((((.(.(((((((((.-.....))))(..((((((((((((((((....)))...)))))))))))))..)....(....).)))))).))...)))) ( -26.30, z-score =  -2.36, R)
>consensus
CCGUAUUUUUCCCUCAGCGUAUCGUUUUGUUGGAAAACGCAAAUUGCUAUUUUGUCAGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGA
..........(((.(.(.((((((((((.....)))))...((((((((((((((...........))))))))))))))..(((.....))).))))).)...).))). (-23.73 = -23.98 +   0.25)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,176,872 – 17,176,983
Length 111
Sequences 7
Columns 114
Reading direction forward
Mean pairwise identity 78.54
Shannon entropy 0.42617
G+C content 0.48107
Mean single sequence MFE -24.92
Consensus MFE -15.06
Energy contribution -16.13
Covariance contribution 1.07
Combinations/Pair 1.33
Mean z-score -1.54
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.61
SVM RNA-class probability 0.760639
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17176872 111 + 24543557
ACGCAAAUUGCUAUUUUGUCAGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGACGGAAAGAGACGGG-GCGAUAGGCAGUGAUAGAGACGG--
.(((..(((((((((((((..(.....)..)))))))))))))((((((.............(((.....))).((........))..-........))))))....).)).-- ( -26.80, z-score =  -2.28, R)
>droEre2.scaffold_4784 9087985 111 - 25762168
ACGCAAAUUGCUAUUUUGUCUGAACAGCAAACGAGAUGGCAAUUCACUGGAAAGCAGAGAUACCCAGAGCGGGGCGGAAAGAGAUGGG-GCGACAGGCAGUGAGAGAGACGG--
.(((...((((((((((((.((.....)).))))))))))))(((((((.............(((.....)))..............(-....)...)))))))...).)).-- ( -28.30, z-score =  -1.28, R)
>droYak2.chr3L 7298884 111 - 24197627
ACGCAAAUUGCUAUUUUGUCUGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGCCGGAAAGAGAUGGG-GCGACAGGCAGUGAGAGAGACGG--
.(((...((((((((((((.((.....)).))))))))))))(((((((.............(((.....)))(((........))).-........)))))))...).)).-- ( -28.90, z-score =  -1.56, R)
>droSec1.super_0 9228819 111 + 21120651
ACGCAAAUUGCUAUUUUGUCAGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGACGGAAAGGGACGGG-GCGAUAGGCAGUGAGAGAGACGG--
.(((...((((((((((((..(.....)..))))))))))))(((((((.............(((.....))).((........))..-........)))))))...).)).-- ( -27.10, z-score =  -2.06, R)
>droSim1.chr3L 16511215 111 + 22553184
ACGCAAAUUGCUAUUUUGUCAGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGACGGAAAGGGACGGG-GCGAUAGGCAGUGAGAGAGACGG--
.(((...((((((((((((..(.....)..))))))))))))(((((((.............(((.....))).((........))..-........)))))))...).)).-- ( -27.10, z-score =  -2.06, R)
>droWil1.scaffold_181009 372597 107 - 3585778
ACGCAAAUUGCUAUUUUGUUUGAGUCACAAGUGAAAAAGAGA-----AAGAACAACCAAACACAAAGAAUAUGAGCGAAAGAGAGAGACUCUAUGGAGGACAGCAGAGAGGG--
.......(((((.((((.(..(((((....(((.........-----.............)))............(....).....)))))...).)))).)))))......-- ( -15.55, z-score =  -0.08, R)
>droAna3.scaffold_13337 7300271 113 + 23293914
ACGCAAAUUGCUAUUUUGUCUGAACAGAAAACGAGAUGGCAAUUCACAAAACGAAAGAGAUACCCGGCCAGAGAGGAAGUGAGACAGA-UUAACAUAGAAUGAAAGAGAUGGGU
..(..((((((((((((((((....)))...)))))))))))))..)....(....)....(((((.((.....))..((........-...))...............))))) ( -20.70, z-score =  -1.46, R)
>consensus
ACGCAAAUUGCUAUUUUGUCUGAACAGCAAACGAGAUGGCAAUUCACUGGAAAACAGAGAUACCCAGAGCGGGACGGAAAGAGACGGG_GCGAUAGGCAGUGAGAGAGACGG__
......(((((((((((((...........)))))))))))))((((((.............(((.....))).((........))...........))))))........... (-15.06 = -16.13 +   1.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:33:07 2011