Locus 11847

Sequence ID dm3.chr3R
Location 24,208,034 – 24,208,138
Length 104
Max. P 0.991461
window16282 window16283 window16284

overview

Window 2

Location 24,208,034 – 24,208,136
Length 102
Sequences 8
Columns 104
Reading direction reverse
Mean pairwise identity 83.84
Shannon entropy 0.30753
G+C content 0.43468
Mean single sequence MFE -23.95
Consensus MFE -15.48
Energy contribution -15.37
Covariance contribution -0.11
Combinations/Pair 1.33
Mean z-score -2.33
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.32
SVM RNA-class probability 0.925904
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24208034 102 - 27905053
AAUGAAAAUAAAUCUUAAAGUGCG-CUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-
..(((..............(((((-(((....))))....((((......)))).......))))......(((((...)))))...))).............- ( -27.20, z-score =  -3.19, R)
>droSim1.chr3R 23894919 102 - 27517382
AAUGAAAAUAAAUCUUAAAGUGCG-CUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-
..(((..............(((((-(((....))))....((((......)))).......))))......(((((...)))))...))).............- ( -27.20, z-score =  -3.19, R)
>droSec1.super_22 811489 102 - 1066717
AAUGAAAAUAAAUCUUAAAGUGCG-CUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-
..(((..............(((((-(((....))))....((((......)))).......))))......(((((...)))))...))).............- ( -27.20, z-score =  -3.19, R)
>droYak2.chr3R 6538944 102 + 28832112
AAUGAAAAUAAAUCUUAAAGUGCG-CUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-
..(((..............(((((-(((....))))....((((......)))).......))))......(((((...)))))...))).............- ( -27.20, z-score =  -3.19, R)
>droEre2.scaffold_4820 6635681 102 + 10470090
AAUGAAAAUAAAUCUUAAAGUGCG-CUGCCAACAGCAAACGCCAUCAACUUGGCACUCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-
..(((..............(((((-(((....))))....((((......)))).......))))......(((((...)))))...))).............- ( -27.20, z-score =  -3.36, R)
>droAna3.scaffold_13340 17008660 99 - 23697760
AAUGAAAAUAAAUCUUAAAGUAUGCUCACCCACAAUGGCCAUCAACU-----CGGCGCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUACGC
...................(((((......((((...(((.......-----.)))..)))).........(((((...))))).............))))).. ( -18.60, z-score =  -0.39, R)
>dp4.chr2 20467910 89 + 30794189
--UGGAAAUAAAUCUUAAAGCACG-UC----AAAGCUGACGACGACA-------AUGCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-
--..(((............((.((-((----(....)))))(((...-------....)))))........(((((...)))))...............))).- ( -18.50, z-score =  -1.09, R)
>droPer1.super_0 10155413 89 - 11822988
--UGGAAAUAAAUCUUAAAGCACG-UC----AAAGCUGACGACGACA-------AUGCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG-
--..(((............((.((-((----(....)))))(((...-------....)))))........(((((...)))))...............))).- ( -18.50, z-score =  -1.09, R)
>consensus
AAUGAAAAUAAAUCUUAAAGUGCG_CUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUCG_
..(((..............(((((..(((((...................)))))...)))))........(((((...)))))...))).............. (-15.48 = -15.37 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 3

Location 24,208,035 – 24,208,138
Length 103
Sequences 8
Columns 103
Reading direction forward
Mean pairwise identity 83.54
Shannon entropy 0.31613
G+C content 0.42957
Mean single sequence MFE -29.27
Consensus MFE -22.03
Energy contribution -21.99
Covariance contribution -0.04
Combinations/Pair 1.23
Mean z-score -1.25
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.03
SVM RNA-class probability 0.509544
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24208035 103 + 27905053
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCACAGAGUGCCAAGUUGAUGGCGUUUGCUGUUGGCAGCGCACUUUAAGAUUUAUUUUCAUUUG
(((.(((..(.((((..((((((...)))(((...(((..(.....)..))).((..(((((....)))))..))))))))..)))).)..))).)))..... ( -32.70, z-score =  -1.78, R)
>droSim1.chr3R 23894920 103 + 27517382
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCACAGAGUGCCAAGUUGAUGGCGUUUGCUGUUGGCAGCGCACUUUAAGAUUUAUUUUCAUUUG
(((.(((..(.((((..((((((...)))(((...(((..(.....)..))).((..(((((....)))))..))))))))..)))).)..))).)))..... ( -32.70, z-score =  -1.78, R)
>droSec1.super_22 811490 103 + 1066717
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCACAGAGUGCCAAGUUGAUGGCGUUUGCUGUUGGCAGCGCACUUUAAGAUUUAUUUUCAUUUG
(((.(((..(.((((..((((((...)))(((...(((..(.....)..))).((..(((((....)))))..))))))))..)))).)..))).)))..... ( -32.70, z-score =  -1.78, R)
>droYak2.chr3R 6538945 103 - 28832112
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCACAGAGUGCCAAGUUGAUGGCGUUUGCUGUUGGCAGCGCACUUUAAGAUUUAUUUUCAUUUG
(((.(((..(.((((..((((((...)))(((...(((..(.....)..))).((..(((((....)))))..))))))))..)))).)..))).)))..... ( -32.70, z-score =  -1.78, R)
>droEre2.scaffold_4820 6635682 103 - 10470090
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCACGGAGUGCCAAGUUGAUGGCGUUUGCUGUUGGCAGCGCACUUUAAGAUUUAUUUUCAUUUG
(((.(((..(.((((..((((((...)))(((...(((..(.....)..))).((..(((((....)))))..))))))))..)))).)..))).)))..... ( -32.70, z-score =  -1.70, R)
>droAna3.scaffold_13340 17008662 99 + 23697760
GUAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCAC--AGCGCCGAGUUGAUGGCCAUUGUGGGUG--AGCAUACUUUAAGAUUUAUUUUCAUUUG
...((((((..((.((..(((((...)))))..((((((.(((--(((.....)))).)))))))))).))..--))))))...................... ( -26.30, z-score =  -0.54, R)
>dp4.chr2 20467911 90 - 30794189
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCAC--GGC---------AUUGUCGUCGUCAGCUUUGACGUGCUUUAAGAUUUAUUUCCAUG--
...((((((.((((((..(((((...(((((........))..--)))---------...))))).))))))...))))))....................-- ( -22.20, z-score =  -0.30, R)
>droPer1.super_0 10155414 90 + 11822988
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCAC--GGC---------AUUGUCGUCGUCAGCUUUGACGUGCUUUAAGAUUUAUUUCCAUG--
...((((((.((((((..(((((...(((((........))..--)))---------...))))).))))))...))))))....................-- ( -22.20, z-score =  -0.30, R)
>consensus
GAAUAUGUUUGUUGAUUUGCGGCUAAGCCGCUAAAUGGUGCACAGAGUGCCAAGUUGAUGGCGUUUGCUGUUGGCAGCGCACUUUAAGAUUUAUUUUCAUUUG
(((((.((((....(((((((((...))))).))))(((((.......((((......))))....((((....)))))))))...)))).)))))....... (-22.03 = -21.99 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 24,208,035 – 24,208,138
Length 103
Sequences 8
Columns 103
Reading direction reverse
Mean pairwise identity 83.54
Shannon entropy 0.31613
G+C content 0.42957
Mean single sequence MFE -23.89
Consensus MFE -20.10
Energy contribution -19.57
Covariance contribution -0.53
Combinations/Pair 1.37
Mean z-score -2.45
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.48
SVM RNA-class probability 0.991461
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24208035 103 - 27905053
CAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
....(((..............((((((((....))))....((((......)))).......))))......(((((...)))))...)))............ ( -27.20, z-score =  -3.21, R)
>droSim1.chr3R 23894920 103 - 27517382
CAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
....(((..............((((((((....))))....((((......)))).......))))......(((((...)))))...)))............ ( -27.20, z-score =  -3.21, R)
>droSec1.super_22 811490 103 - 1066717
CAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
....(((..............((((((((....))))....((((......)))).......))))......(((((...)))))...)))............ ( -27.20, z-score =  -3.21, R)
>droYak2.chr3R 6538945 103 + 28832112
CAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
....(((..............((((((((....))))....((((......)))).......))))......(((((...)))))...)))............ ( -27.20, z-score =  -3.21, R)
>droEre2.scaffold_4820 6635682 103 + 10470090
CAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCCGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
....(((..............((((((((....))))....((((......)))).......))))......(((((...)))))...)))............ ( -27.20, z-score =  -3.43, R)
>droAna3.scaffold_13340 17008662 99 - 23697760
CAAAUGAAAAUAAAUCUUAAAGUAUGCU--CACCCACAAUGGCCAUCAACUCGGCGCU--GUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUAC
.....................(((((..--....((((...(((........)))..)--))).........(((((...)))))...........))))).. ( -18.10, z-score =  -0.76, R)
>dp4.chr2 20467911 90 + 30794189
--CAUGGAAAUAAAUCUUAAAGCACGUCAAAGCUGACGACGACAAU---------GCC--GUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
--.((((.................(((((....)))))(((.....---------..)--))...))))...(((((...))))).................. ( -18.50, z-score =  -1.29, R)
>droPer1.super_0 10155414 90 - 11822988
--CAUGGAAAUAAAUCUUAAAGCACGUCAAAGCUGACGACGACAAU---------GCC--GUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
--.((((.................(((((....)))))(((.....---------..)--))...))))...(((((...))))).................. ( -18.50, z-score =  -1.29, R)
>consensus
CAAAUGAAAAUAAAUCUUAAAGUGCGCUGCCAACAGCAAACGCCAUCAACUUGGCACUCUGUGCACCAUUUAGCGGCUUAGCCGCAAAUCAACAAACAUAUUC
....(((..............((((((((....))))....(((........))).....))))........(((((...)))))...)))............ (-20.10 = -19.57 +  -0.53)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:50:49 2011