Locus 11391

Sequence ID dm3.chr3R
Location 20,812,700 – 20,812,779
Length 79
Max. P 0.990806
window15656 window15657

overview

Window 6

Location 20,812,700 – 20,812,779
Length 79
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 81.83
Shannon entropy 0.31573
G+C content 0.48169
Mean single sequence MFE -28.23
Consensus MFE -21.75
Energy contribution -22.39
Covariance contribution 0.64
Combinations/Pair 1.20
Mean z-score -2.15
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.76
SVM RNA-class probability 0.965773
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20812700 79 + 27905053
--------------GACUGCCUUUUGGCCUUUUGGUCUCUUGGCCACG-GCCAUUGUGCAAAUAGUUGCCGCAUGCACAGGCAGAAAUAUGUUA
--------------..(((((...(((((...(((((....))))).)-)))).((((((.............))))))))))).......... ( -30.02, z-score =  -2.53, R)
>droSim1.chr3R 20644384 79 + 27517382
--------------GACUGCCUUUUGGCCUUUUGGUCUCUUGGCCACG-GCCAUUGUGCAAAUAGUUGCCGUAUGCACAGGCAGAAAUAUGUUA
--------------..(((((...(((((...(((((....))))).)-)))).((((((.((.......)).))))))))))).......... ( -30.60, z-score =  -3.08, R)
>droSec1.super_33 74108 79 + 478481
--------------GACUGCCUUUUGGCCUUUUGGUCUCUUGGCCACG-GCCAUUGUGCAAAUAGUUGCAGCAUGCACAGGCAGAAAUAUGUUA
--------------..(((((...(((((...(((((....))))).)-)))).((((((.............))))))))))).......... ( -30.02, z-score =  -2.42, R)
>droYak2.chr3R 3145889 79 - 28832112
--------------GACUGCCUUUUGGCCUUUUGGUCUCUUGGCCACG-GCCAUUGUGCAAAUAGUUGCGGCAUGCACAGGCAGAAAUAUGUUA
--------------..(((((...(((((...(((((....))))).)-)))).((((((.............))))))))))).......... ( -30.02, z-score =  -2.30, R)
>droEre2.scaffold_4820 3229747 79 - 10470090
--------------GACUGCCUUUUGGCCUUUUGGUCUCUUGGCCACG-GCCAUUGUGCAAAUAGUUGCCGCAUGCACAGGCAAAAAUAUGUUA
--------------...((((...(((((...(((((....))))).)-)))).((((((.............))))))))))........... ( -26.72, z-score =  -1.65, R)
>droAna3.scaffold_13340 4855682 87 - 23697760
GACGACGUUGUUGUUGCUGUUUUUCAGCCUUUCGGCCA--UGGCCGUUCGCCAUUGUGCAAAUAGUUUCAGU-----CAGUCGGUAAUUUAUGA
..((((....(((..(((((((..(((((....))).(--((((.....)))))))...)))))))..))).-----..))))........... ( -22.00, z-score =  -0.94, R)
>consensus
______________GACUGCCUUUUGGCCUUUUGGUCUCUUGGCCACG_GCCAUUGUGCAAAUAGUUGCCGCAUGCACAGGCAGAAAUAUGUUA
................(((((...((((....(((((....)))))...)))).((((((.............))))))))))).......... (-21.75 = -22.39 +   0.64)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,812,700 – 20,812,779
Length 79
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 81.83
Shannon entropy 0.31573
G+C content 0.48169
Mean single sequence MFE -27.72
Consensus MFE -18.28
Energy contribution -18.75
Covariance contribution 0.47
Combinations/Pair 1.22
Mean z-score -2.94
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.44
SVM RNA-class probability 0.990806
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20812700 79 - 27905053
UAACAUAUUUCUGCCUGUGCAUGCGGCAACUAUUUGCACAAUGGC-CGUGGCCAAGAGACCAAAAGGCCAAAAGGCAGUC--------------
..........(((((((((((...(....)....)))))..((((-(.(((........)))...)))))..))))))..-------------- ( -30.10, z-score =  -3.20, R)
>droSim1.chr3R 20644384 79 - 27517382
UAACAUAUUUCUGCCUGUGCAUACGGCAACUAUUUGCACAAUGGC-CGUGGCCAAGAGACCAAAAGGCCAAAAGGCAGUC--------------
..........(((((((((((...(....)....)))))..((((-(.(((........)))...)))))..))))))..-------------- ( -30.10, z-score =  -3.84, R)
>droSec1.super_33 74108 79 - 478481
UAACAUAUUUCUGCCUGUGCAUGCUGCAACUAUUUGCACAAUGGC-CGUGGCCAAGAGACCAAAAGGCCAAAAGGCAGUC--------------
..........(((((((((((.............)))))..((((-(.(((........)))...)))))..))))))..-------------- ( -27.82, z-score =  -2.58, R)
>droYak2.chr3R 3145889 79 + 28832112
UAACAUAUUUCUGCCUGUGCAUGCCGCAACUAUUUGCACAAUGGC-CGUGGCCAAGAGACCAAAAGGCCAAAAGGCAGUC--------------
..........(((((((((((.............)))))..((((-(.(((........)))...)))))..))))))..-------------- ( -27.82, z-score =  -2.76, R)
>droEre2.scaffold_4820 3229747 79 + 10470090
UAACAUAUUUUUGCCUGUGCAUGCGGCAACUAUUUGCACAAUGGC-CGUGGCCAAGAGACCAAAAGGCCAAAAGGCAGUC--------------
..........(((((((((((...(....)....)))))..((((-(.(((........)))...)))))..))))))..-------------- ( -28.20, z-score =  -2.57, R)
>droAna3.scaffold_13340 4855682 87 + 23697760
UCAUAAAUUACCGACUG-----ACUGAAACUAUUUGCACAAUGGCGAACGGCCA--UGGCCGAAAGGCUGAAAAACAGCAACAACAACGUCGUC
............(((.(-----((.........((((...(((((.....))))--)((((....))))........)))).......)))))) ( -22.29, z-score =  -2.66, R)
>consensus
UAACAUAUUUCUGCCUGUGCAUGCGGCAACUAUUUGCACAAUGGC_CGUGGCCAAGAGACCAAAAGGCCAAAAGGCAGUC______________
..........(((((((((((.............)))))..((((...(((........)))....))))..))))))................ (-18.28 = -18.75 +   0.47)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:42:03 2011