Locus 10625

Sequence ID dm3.chr3R
Location 15,152,467 – 15,152,528
Length 61
Max. P 0.990975
window14611 window14612

overview

Window 1

Location 15,152,467 – 15,152,528
Length 61
Sequences 5
Columns 70
Reading direction forward
Mean pairwise identity 65.37
Shannon entropy 0.63717
G+C content 0.31526
Mean single sequence MFE -11.36
Consensus MFE -3.64
Energy contribution -4.64
Covariance contribution 1.00
Combinations/Pair 1.22
Mean z-score -1.59
Structure conservation index 0.32
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.02
SVM RNA-class probability 0.505088
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 15152467 61 + 27905053
AAGCAAAAUGCUUAGCAACAUUUAUUGUUGCCAAGAUGA---------GAACCAAAAAUAAAAUUAAAGA
((((.....)))).((((((.....))))))........---------...................... ( -10.00, z-score =  -1.81, R)
>droSim1.chr3R 21187877 69 - 27517382
AAGCAAAAUGCUUAGCAACAUUAAUUGUUGCCAAGAUAA-GUUGUUGAGAACCAAAAAUGAAAUUAAAGA
.(((((....(((.((((((.....)))))).)))....-.)))))........................ ( -13.30, z-score =  -2.36, R)
>droYak2.chr3R 3871756 70 + 28832112
AAGCAAAAUGCUUAGCAACAUUUCUUGUUGAGAAGACGACUUUGAAGGGAACUCAAAAUCCAAUUUAGCA
..((.((((.(((..(((((.....)))))..)))..((.(((((.(....)))))).))..)))).)). ( -15.10, z-score =  -1.55, R)
>droEre2.scaffold_4770 11265311 70 - 17746568
AAGCGAAAUGUUUAGCAACAUUUCUCGUUGCCAAGACGAAGUUGAAAAUACCAGAAAAUUAAAUUUACGA
.(((((((((((....))))))))(((((.....))))).)))........................... ( -11.30, z-score =  -1.30, R)
>droVir3.scaffold_13047 16473987 59 + 19223366
AAGGCAAUUGCCUAUCCAUAUCUAUUUCCCGCAAGAUGC-----AAACUAAAUAAAAAUGAAAA------
.((((....)))).................((.....))-----....................------ (  -7.10, z-score =  -0.95, R)
>consensus
AAGCAAAAUGCUUAGCAACAUUUAUUGUUGCCAAGAUGA__UUGAAAAGAACCAAAAAUGAAAUUAAAGA
..........(((.((((((.....)))))).)))................................... ( -3.64 =  -4.64 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,152,467 – 15,152,528
Length 61
Sequences 5
Columns 70
Reading direction reverse
Mean pairwise identity 65.37
Shannon entropy 0.63717
G+C content 0.31526
Mean single sequence MFE -13.10
Consensus MFE -6.30
Energy contribution -7.22
Covariance contribution 0.92
Combinations/Pair 1.30
Mean z-score -1.95
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.45
SVM RNA-class probability 0.990975
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 15152467 61 - 27905053
UCUUUAAUUUUAUUUUUGGUUC---------UCAUCUUGGCAACAAUAAAUGUUGCUAAGCAUUUUGCUU
.................(((..---------....((((((((((.....))))))))))......))). ( -13.20, z-score =  -2.65, R)
>droSim1.chr3R 21187877 69 + 27517382
UCUUUAAUUUCAUUUUUGGUUCUCAACAAC-UUAUCUUGGCAACAAUUAAUGUUGCUAAGCAUUUUGCUU
..............................-....((((((((((.....)))))))))).......... ( -12.00, z-score =  -2.11, R)
>droYak2.chr3R 3871756 70 - 28832112
UGCUAAAUUGGAUUUUGAGUUCCCUUCAAAGUCGUCUUCUCAACAAGAAAUGUUGCUAAGCAUUUUGCUU
.((.......(((((((((.....))))))))).............((((((((....)))))))))).. ( -14.60, z-score =  -1.51, R)
>droEre2.scaffold_4770 11265311 70 + 17746568
UCGUAAAUUUAAUUUUCUGGUAUUUUCAACUUCGUCUUGGCAACGAGAAAUGUUGCUAAACAUUUCGCUU
((((.............(((.....))).....((....)).))))((((((((....)))))))).... ( -11.50, z-score =  -1.24, R)
>droVir3.scaffold_13047 16473987 59 - 19223366
------UUUUCAUUUUUAUUUAGUUU-----GCAUCUUGCGGGAAAUAGAUAUGGAUAGGCAAUUGCCUU
------..(((((.(((((((...((-----((.....)))).))))))).))))).((((....)))). ( -14.20, z-score =  -2.22, R)
>consensus
UCUUAAAUUUCAUUUUUAGUUCUCUUCAA__UCAUCUUGGCAACAAUAAAUGUUGCUAAGCAUUUUGCUU
...................................((((((((((.....)))))))))).......... ( -6.30 =  -7.22 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:30 2011