Locus 8057

Sequence ID dm3.chr3L
Location 19,850,295 – 19,850,368
Length 73
Max. P 0.960556
window11088 window11089

overview

Window 8

Location 19,850,295 – 19,850,368
Length 73
Sequences 3
Columns 73
Reading direction forward
Mean pairwise identity 57.35
Shannon entropy 0.57744
G+C content 0.42377
Mean single sequence MFE -15.87
Consensus MFE -12.03
Energy contribution -11.27
Covariance contribution -0.77
Combinations/Pair 1.64
Mean z-score -0.97
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.68
SVM RNA-class probability 0.960556
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19850295 73 + 24543557
UCUCUGAGUUCCUUACCUUUGGUAGGGGGAAACUGCAGAGUCGAUUAAAGGCUCGAUUGACCAAAUGUAAAAU
............((((.((((((.(.((....)).).(((((.......))))).....)))))).))))... ( -20.60, z-score =  -1.70, R)
>droSec1.super_43 270810 65 - 327307
UCUCUGAGUUUUUUACUACUGGUGCGAAAAAACUGCAGAGA--------AUUUCGAAAAACAAAACAACCAAA
((((((((((((((..((....))..)))))))).))))))--------........................ ( -13.30, z-score =  -2.39, R)
>droAna3.scaffold_13770 628024 61 - 865660
AACCUGAGUCUCUUACCACAGG--GGGGAAAACGUCAGGGU--------GUCUCGAUGGACCAAGUGUUAA--
..(((((((.(((..((...))--..)))..)).)))))(.--------((((....))))).........-- ( -13.70, z-score =   1.17, R)
>consensus
UCUCUGAGUUUCUUACCACUGGU_GGGGAAAACUGCAGAGU________GUCUCGAUAGACCAAAUGUAAAA_
.(((((..(((((((((...)))))))))......)))))................................. (-12.03 = -11.27 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 19,850,295 – 19,850,368
Length 73
Sequences 3
Columns 73
Reading direction reverse
Mean pairwise identity 57.35
Shannon entropy 0.57744
G+C content 0.42377
Mean single sequence MFE -15.30
Consensus MFE -8.64
Energy contribution -8.20
Covariance contribution -0.44
Combinations/Pair 1.39
Mean z-score -1.30
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.929486
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19850295 73 - 24543557
AUUUUACAUUUGGUCAAUCGAGCCUUUAAUCGACUCUGCAGUUUCCCCCUACCAAAGGUAAGGAACUCAGAGA
.................((((........))))(((((.((((((..(((.....)))...))))))))))). ( -17.90, z-score =  -1.93, R)
>droSec1.super_43 270810 65 + 327307
UUUGGUUGUUUUGUUUUUCGAAAU--------UCUCUGCAGUUUUUUCGCACCAGUAGUAAAAAACUCAGAGA
.......((((((.....))))))--------((((((.((((((((.((.......)))))))))))))))) ( -15.10, z-score =  -2.19, R)
>droAna3.scaffold_13770 628024 61 + 865660
--UUAACACUUGGUCCAUCGAGAC--------ACCCUGACGUUUUCCCC--CCUGUGGUAAGAGACUCAGGUU
--......(((((....)))))..--------..(((((.(((((...(--(....))...)))))))))).. ( -12.90, z-score =   0.23, R)
>consensus
_UUUAACAUUUGGUCAAUCGAGAC________ACUCUGCAGUUUUCCCC_ACCAGUGGUAAGAAACUCAGAGA
........(((((....)))))...........(((((.((((((..((.......))...))))))))))). ( -8.64 =  -8.20 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:38:37 2011