Locus 2875

Sequence ID dm3.chr2RHet
Location 1,266,323 – 1,266,385
Length 62
Max. P 0.715628
window3961 window3962

overview

Window 1

Location 1,266,323 – 1,266,385
Length 62
Sequences 3
Columns 63
Reading direction forward
Mean pairwise identity 53.72
Shannon entropy 0.65712
G+C content 0.39739
Mean single sequence MFE -12.97
Consensus MFE -5.27
Energy contribution -5.83
Covariance contribution 0.56
Combinations/Pair 1.36
Mean z-score -1.21
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.715628
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1266323 62 + 3288761
AUUGUCCAGCAGAGAACUGGAAGGGUGGCAUUUUUUGCCACUCGACUCACACUCAACAAUUU-
(((((((((.......))))).((((((((.....)))))))).............))))..- ( -19.90, z-score =  -3.10, R)
>droYak2.chr2h_random 1441390 61 + 3774259
-AUCCUCCACAUGGGAAUGUAAAGCAUACAUUUUUUGUUGUUUCUUUUAAUCGAAACACUGU-
-.......(((.(((((((((.....))))))))))))((((((........))))))....- ( -10.10, z-score =  -1.00, R)
>droMoj3.scaffold_6540 30595448 63 - 34148556
AGUGCCUGACAGAGAGCUGCAAGUGUGCCAAUUUUUGCCACCUUAAUCACACUCAAUAAAAUU
((((..(((..(((.(..(((((.((....)).)))))..))))..))))))).......... (  -8.90, z-score =   0.47, R)
>consensus
AAUGCCCAACAGAGAACUGCAAGGGUGACAUUUUUUGCCACUUCAAUCACACUCAACAAUAU_
.........(((....)))...((((((((.....)))))))).................... ( -5.27 =  -5.83 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,266,323 – 1,266,385
Length 62
Sequences 3
Columns 63
Reading direction reverse
Mean pairwise identity 53.72
Shannon entropy 0.65712
G+C content 0.39739
Mean single sequence MFE -14.70
Consensus MFE -5.18
Energy contribution -5.30
Covariance contribution 0.12
Combinations/Pair 1.50
Mean z-score -1.38
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.555989
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1266323 62 - 3288761
-AAAUUGUUGAGUGUGAGUCGAGUGGCAAAAAAUGCCACCCUUCCAGUUCUCUGCUGGACAAU
-..((((((.((((.(((..((((((((.....))))))...)).....))))))).)))))) ( -18.40, z-score =  -2.57, R)
>droYak2.chr2h_random 1441390 61 - 3774259
-ACAGUGUUUCGAUUAAAAGAAACAACAAAAAAUGUAUGCUUUACAUUCCCAUGUGGAGGAU-
-....((((((........))))))...........((.((((((((....)))))))).))- ( -12.20, z-score =  -1.69, R)
>droMoj3.scaffold_6540 30595448 63 + 34148556
AAUUUUAUUGAGUGUGAUUAAGGUGGCAAAAAUUGGCACACUUGCAGCUCUCUGUCAGGCACU
..........(((((.......(((.((.....)).))).((.((((....)))).))))))) ( -13.50, z-score =   0.13, R)
>consensus
_AAAUUGUUGAGUGUGAAUAAAGUGGCAAAAAAUGCCACCCUUACAGUUCUCUGUCGGGCAAU
...........((((.......((((((.....)))))).((.((((....)))).)))))). ( -5.18 =  -5.30 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:59:38 2011