Locus 8277

Sequence ID dm3.chr3L
Location 21,595,880 – 21,595,970
Length 90
Max. P 0.999671
window11374 window11375

overview

Window 4

Location 21,595,880 – 21,595,970
Length 90
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 59.60
Shannon entropy 0.71398
G+C content 0.60889
Mean single sequence MFE -35.38
Consensus MFE -16.21
Energy contribution -16.49
Covariance contribution 0.28
Combinations/Pair 1.53
Mean z-score -1.78
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.55
SVM RNA-class probability 0.992612
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21595880 90 + 24543557
--UUUGAGGGCCAAGGAGCUGGAGCUGGAGCUCGAGCCGAAGGAAGAGACUGAGGAUCCAGCCGAGCUCCAGCUCUGCGGAUUGGAGCGCGU--------
--((..(...((..((((((((((((.(.(((.((.((..((.......))..)).)).)))).))))))))))))..)).)..))......-------- ( -40.90, z-score =  -2.05, R)
>droSim1.chr3L 20932535 75 + 22553184
-----------CAAGGAGCUGAAGCUG------GAGCCGGAGCAAGAGGCUGAGGAUCCAGCCGAGCUUCAGCUCUGCGGAUUGGAGCGCGU--------
-----------...((((((((((((.------..((....))....(((((......))))).))))))))))))(((........)))..-------- ( -34.50, z-score =  -2.08, R)
>droSec1.super_11 1516009 75 + 2888827
-----------CAAGGAGCUGAAGCUG------GAGCCGGAGCAAGAGGCUGAGGAUCCAGCCGAGCUUCAGCUCUGCGGAUUGGAGCGCGU--------
-----------...((((((((((((.------..((....))....(((((......))))).))))))))))))(((........)))..-------- ( -34.50, z-score =  -2.08, R)
>droYak2.chr3L 5281732 90 - 24197627
--UUUGGGGGCCAAGGAGCUGGAGCUGUAGCUGGAGCCAGAGGAAGAGGAUGAGGAGCCAGCCGAGCUUCAGCUCCGCGGAUUGGAGCGCGU--------
--.((((...))))((((((((((((...(((((..((...............))..)))))..))))))))))))(((........)))..-------- ( -39.46, z-score =  -2.07, R)
>droEre2.scaffold_4784 21250989 72 + 25762168
--CUCGGGGGCCAAGGAGCUGGAGCCG------------GAGGAAGAGGAU------CCAGCCGAACUCCAGCUCCGCGGAUUGGAGCGCGU--------
--(((.((..((..((((((((((.((------------(.(((......)------))..)))..))))))))))..)).)).))).....-------- ( -33.00, z-score =  -1.37, R)
>droWil1.scaffold_180727 1708519 97 - 2741493
AUCGUAAGCUCCGUCAUGAUGAUUGUGUGG---GUUCAAGAGGCGAACAAGGGAAGCCUUGCUUUUUUUUUCUUUUAUGAGAAGAGAAGCGCGAGCGCGU
.......((.(((.((..(...)..)))))---((((..(((((...........)))))((((((((((((......))))))))))))..)))))).. ( -29.90, z-score =  -1.07, R)
>consensus
___UUG_GGGCCAAGGAGCUGAAGCUG______GAGCCGGAGGAAGAGGAUGAGGAUCCAGCCGAGCUUCAGCUCUGCGGAUUGGAGCGCGU________
..............((((((((((((......................................))))))))))))(((........))).......... (-16.21 = -16.49 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 21,595,880 – 21,595,970
Length 90
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 59.60
Shannon entropy 0.71398
G+C content 0.60889
Mean single sequence MFE -31.09
Consensus MFE -15.93
Energy contribution -17.29
Covariance contribution 1.37
Combinations/Pair 1.52
Mean z-score -2.56
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.17
SVM RNA-class probability 0.999671
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21595880 90 - 24543557
--------ACGCGCUCCAAUCCGCAGAGCUGGAGCUCGGCUGGAUCCUCAGUCUCUUCCUUCGGCUCGAGCUCCAGCUCCAGCUCCUUGGCCCUCAAA--
--------..(.(..((((...((.(((((((((((((((((((...............)))))).)))))))))))))..))...))))..).)...-- ( -38.66, z-score =  -3.21, R)
>droSim1.chr3L 20932535 75 - 22553184
--------ACGCGCUCCAAUCCGCAGAGCUGAAGCUCGGCUGGAUCCUCAGCCUCUUGCUCCGGCUC------CAGCUUCAGCUCCUUG-----------
--------..(((........))).(((((((((((.((((((....))))))....((....))..------.)))))))))))....----------- ( -31.80, z-score =  -3.12, R)
>droSec1.super_11 1516009 75 - 2888827
--------ACGCGCUCCAAUCCGCAGAGCUGAAGCUCGGCUGGAUCCUCAGCCUCUUGCUCCGGCUC------CAGCUUCAGCUCCUUG-----------
--------..(((........))).(((((((((((.((((((....))))))....((....))..------.)))))))))))....----------- ( -31.80, z-score =  -3.12, R)
>droYak2.chr3L 5281732 90 + 24197627
--------ACGCGCUCCAAUCCGCGGAGCUGAAGCUCGGCUGGCUCCUCAUCCUCUUCCUCUGGCUCCAGCUACAGCUCCAGCUCCUUGGCCCCCAAA--
--------..(((........)))(((((((.((((.((((((..((...............))..))))))..)))).)))))))((((...)))).-- ( -33.86, z-score =  -3.03, R)
>droEre2.scaffold_4784 21250989 72 - 25762168
--------ACGCGCUCCAAUCCGCGGAGCUGGAGUUCGGCUGG------AUCCUCUUCCUC------------CGGCUCCAGCUCCUUGGCCCCCGAG--
--------.....(((....(((.(((((((((((.(((..((------(......))).)------------))))))))))))).))).....)))-- ( -34.40, z-score =  -3.11, R)
>droWil1.scaffold_180727 1708519 97 + 2741493
ACGCGCUCGCGCUUCUCUUCUCAUAAAAGAAAAAAAAAGCAAGGCUUCCCUUGUUCGCCUCUUGAAC---CCACACAAUCAUCAUGACGGAGCUUACGAU
..((....))(((((((((((......))))......(((((((....)))))))............---...............)).)))))....... ( -16.00, z-score =   0.19, R)
>consensus
________ACGCGCUCCAAUCCGCAGAGCUGAAGCUCGGCUGGAUCCUCAGCCUCUUCCUCCGGCUC______CAGCUCCAGCUCCUUGGCCC_CAA___
..........(((........))).(((((((((((.(((((((...............)))))))........)))))))))))............... (-15.93 = -17.29 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:42:38 2011