Locus 2984

Sequence ID dm3.chr2R
Location 735,716 – 735,786
Length 70
Max. P 0.920564
window4096 window4097

overview

Window 6

Location 735,716 – 735,786
Length 70
Sequences 5
Columns 78
Reading direction forward
Mean pairwise identity 53.05
Shannon entropy 0.80763
G+C content 0.45340
Mean single sequence MFE -18.84
Consensus MFE -5.77
Energy contribution -5.57
Covariance contribution -0.20
Combinations/Pair 1.64
Mean z-score -1.53
Structure conservation index 0.31
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.868274
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 735716 70 + 21146708
-----ACAACAUCCCGUUUUUUUGAUGA--CCGCUUGAGGACAAGCGUCGAUUAAGAGGGGAGGAGUUAUUGCCCUA-
-----......((((...((((((((((--(.(((((....)))))))).))))))))))))((.((....))))..- ( -20.10, z-score =  -1.76, R)
>droSec1.super_160 25237 66 - 40611
-----ACAACAUUCCAUAUUUCUGAUGG--CUGCUUGAAGACAAGCAGAAAUUAAGGAGGGAGGAGUUAACUA-----
-----..(((.((((...((..((((..--(((((((....)))))))..))))..)).))))..))).....----- ( -20.30, z-score =  -3.77, R)
>droAna3.scaffold_13339 1902855 68 + 4599533
------UAACCCUGUUCUCUUCUACGUU--GCGAACGAGGACGCCCG-CGUUUAAGGGGGGAAGAGUUA-ACACCUAA
------......((((((((((..(.((--..(((((.((....)).-))))).)).)..))))))..)-)))..... ( -19.10, z-score =  -0.32, R)
>droPer1.super_75 70162 71 + 290005
--AUCACACCUUUUCUAAUCUAAUAUAAAAUCGCUUGAGGACAAGCUCCAUUCAGAGGGGGAAGAUUUAACGA-----
--......((((((((.((.....))......(((((....))))).......))))))))............----- ( -10.50, z-score =   0.26, R)
>anoGam1.chrX 2449261 75 - 22145176
ACAUCAUCCCACUGCAAACGUCGGUAAG--UCGAUCGAGGACGCUCGACGUUUAAGGAGGGAGGAGUUAUGUACACA-
...((.((((.((..(((((((((...(--((.......)))..)))))))))..)).)))).))............- ( -24.20, z-score =  -2.07, R)
>consensus
_____ACAACAUUCCAAAUUUCUGAUAA__CCGCUUGAGGACAAGCG_CGUUUAAGGGGGGAGGAGUUAACGAC__A_
..................(((((........((((((....))))))........))))).................. ( -5.77 =  -5.57 +  -0.20)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 735,716 – 735,786
Length 70
Sequences 5
Columns 78
Reading direction reverse
Mean pairwise identity 53.05
Shannon entropy 0.80763
G+C content 0.45340
Mean single sequence MFE -15.30
Consensus MFE -6.94
Energy contribution -5.86
Covariance contribution -1.08
Combinations/Pair 1.83
Mean z-score -0.87
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.28
SVM RNA-class probability 0.920564
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 735716 70 - 21146708
-UAGGGCAAUAACUCCUCCCCUCUUAAUCGACGCUUGUCCUCAAGCGG--UCAUCAAAAAAACGGGAUGUUGU-----
-....((((((.....((((.((......))((((((....)))))).--.............))))))))))----- ( -15.40, z-score =  -1.03, R)
>droSec1.super_160 25237 66 + 40611
-----UAGUUAACUCCUCCCUCCUUAAUUUCUGCUUGUCUUCAAGCAG--CCAUCAGAAAUAUGGAAUGUUGU-----
-----....((((.................(((((((....)))))))--((((.(....)))))...)))).----- ( -12.90, z-score =  -2.12, R)
>droAna3.scaffold_13339 1902855 68 - 4599533
UUAGGUGU-UAACUCUUCCCCCCUUAAACG-CGGGCGUCCUCGUUCGC--AACGUAGAAGAGAACAGGGUUA------
.....(((-(..((((((..(........(-((((((....)))))))--...)..))))))))))......------ ( -15.80, z-score =   0.46, R)
>droPer1.super_75 70162 71 - 290005
-----UCGUUAAAUCUUCCCCCUCUGAAUGGAGCUUGUCCUCAAGCGAUUUUAUAUUAGAUUAGAAAAGGUGUGAU--
-----..((((.(((((..(..(((((((((((((((....)))))...))))).)))))...)..))))).))))-- ( -11.80, z-score =  -0.12, R)
>anoGam1.chrX 2449261 75 + 22145176
-UGUGUACAUAACUCCUCCCUCCUUAAACGUCGAGCGUCCUCGAUCGA--CUUACCGACGUUUGCAGUGGGAUGAUGU
-..........((((.((((.(..(((((((((...(((.......))--)....)))))))))..).)))).)).)) ( -20.60, z-score =  -1.55, R)
>consensus
_U__GUAGAUAACUCCUCCCCCCUUAAACG_CGCUUGUCCUCAAGCGA__CCAUCAGAAAUAAGCAAUGUUGU_____
...............................((((((....))))))............................... ( -6.94 =  -5.86 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:01:29 2011