Locus 4434

Sequence ID dm3.chr2R
Location 13,025,044 – 13,025,183
Length 139
Max. P 0.672171
window6071 window6072

overview

Window 1

Location 13,025,044 – 13,025,143
Length 99
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 69.92
Shannon entropy 0.52242
G+C content 0.52456
Mean single sequence MFE -30.10
Consensus MFE -16.66
Energy contribution -18.38
Covariance contribution 1.72
Combinations/Pair 1.35
Mean z-score -0.98
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.09
SVM RNA-class probability 0.538014
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 13025044 99 - 21146708
AUACGGUUGACGACCUCCUGAUGGUUGAUUAUCUGGAUAAUACGAAGGAGGCGGUGGAAAACGACCGAAGACAAAGGGAGGUGGUCCAAUGGAUCCUGG------
...(.((((((.(((((((..((.((((((((....))))).)))......((((.(....).))))....))..))))))).)).)))).).......------ ( -29.30, z-score =  -1.16, R)
>droSim1.chr2R 11763460 99 - 19596830
AAACGGUUGACGACCUCCAGAUGGUUGGUUAGCUGGAUAAUACGAAGGAGACGGUGGAAAACGACCGAAGGCAAAGGGGGGUGGUCCAUUGGAUCCUGG------
...((((((((((((.......)))).))))))))..........((((..(((((((..((..((..........))..))..)))))))..))))..------ ( -34.90, z-score =  -2.45, R)
>droSec1.super_1 10540391 99 - 14215200
AAACGGUUGACGACCUCCAGAUGGUUGGUUAUCUGGAUAAUACGAAGGAGGCGGUGGAAAACGACCAAAGGCAAAGGGGGGUGGUCCAUUGGAUCCUGG------
....((((...))))(((((((((....)))))))))........((((..(((((((..((..((..........))..))..)))))))..))))..------ ( -31.70, z-score =  -1.27, R)
>droEre2.scaffold_4845 9770530 105 + 22589142
AUACGGUUGACGACCUCCAGAUGGUUGAUUUUCUGGAUAAUACGGAGGGGGCGGUGGGAAGCGACCGAAGGCAAAGGGAGGUGGUCCAGCGGAUCCUGGGCCAAG
...((.....))((((((.....(((..(((((((.......)))))))..((((.(....).))))..)))....))))))(((((((......)))))))... ( -36.80, z-score =  -1.14, R)
>droAna3.scaffold_13266 6306885 84 + 19884421
AUCUGGGCGAUAUCCUCCUGGAACUUGAUUAUAGGGAUUUCUCGGAAAAUAUCCUG----UUAGCUGAGGCU-----GUGGCACUCCAACUGG------------
...(((((.(((.((((....(((.........(((....)))(((.....))).)----))....)))).)-----)).))...))).....------------ ( -17.80, z-score =   1.10, R)
>consensus
AUACGGUUGACGACCUCCAGAUGGUUGAUUAUCUGGAUAAUACGAAGGAGGCGGUGGAAAACGACCGAAGGCAAAGGGAGGUGGUCCAAUGGAUCCUGG______
....(((.....)))(((((((((....)))))))))........((((..((.((((..((..((..........))..))..)))).))..))))........ (-16.66 = -18.38 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 13,025,075 – 13,025,183
Length 108
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 73.89
Shannon entropy 0.50652
G+C content 0.51098
Mean single sequence MFE -32.66
Consensus MFE -19.74
Energy contribution -21.97
Covariance contribution 2.23
Combinations/Pair 1.31
Mean z-score -1.02
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.39
SVM RNA-class probability 0.672171
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 13025075 108 - 21146708
GACUGCCAGGUUGUCCUUGAACUGCACCGACGUUCGGAUAAUACGGUUGACGACCUCCUGAUGGUUGAUUAUCUGGAUAAUACGAAGGAGGCGGUGGAAAACGACCGA
........((((((..((..(((((.((..((((((((((((........(((((.......)))))))))))))).....)))..))..))))).))..)))))).. ( -31.10, z-score =  -0.85, R)
>droSim1.chr2R 11763491 108 - 19596830
GACUGCCAGGUUGUCCUUGAACUGCACCACCAUUCGGAUAAAACGGUUGACGACCUCCAGAUGGUUGGUUAGCUGGAUAAUACGAAGGAGACGGUGGAAAACGACCGA
........((((((...((.....))(((((.((((.......((((((((((((.......)))).)))))))).......))))(....))))))...)))))).. ( -34.44, z-score =  -1.92, R)
>droSec1.super_1 10540422 108 - 14215200
GACUGCCAGGUUGUCCAUGAACUGCACCACCGUUUGGAUAAAACGGUUGACGACCUCCAGAUGGUUGGUUAUCUGGAUAAUACGAAGGAGGCGGUGGAAAACGACCAA
.((((((..((((((((.((.....(((((((((((((......((((...))))))))))))).))))..)))))))))).(....).))))))((.......)).. ( -36.80, z-score =  -2.28, R)
>droYak2.chr2R 2698551 108 + 21139217
GACCGCCAGGUUGUCCGUGAACUGCACCACCGUUCGGAUAAUACGGUUGACGACCUCCAGAUGAUUGAUUAUCUGGGUAAGAGGGAGGAGGCGGUGGGAAACGACCGA
..((.((((((((((.(((.....))).(((((.........))))).))))))))((((((((....)))))))).......)).))...((((.(....).)))). ( -41.30, z-score =  -2.20, R)
>droEre2.scaffold_4845 9770567 108 + 22589142
GACCGCCAGCUUGUCCGUGAACUGCACCACCGUUCGGAUAAUACGGUUGACGACCUCCAGAUGGUUGAUUUUCUGGAUAAUACGGAGGGGGCGGUGGGAAGCGACCGA
.((((((..((..((((((.......(.(((((.........))))).)......((((((..........))))))...)))))))).))))))((.......)).. ( -33.60, z-score =   0.32, R)
>droAna3.scaffold_13266 6306905 89 + 19884421
---------GAUUUCCA-AAGUUUCCUGGCUGUU-----GAUCUGGGCGAUAUCCUCCUGGAACUUGAUUAUAGGGAUUUCUCGGAAAAUAUCCUGUUAGCUGA----
---------..(((((.-.((.((((((...((.-----.(((..((.(.....).))..))..)..))..))))))...)).)))))................---- ( -18.70, z-score =   0.80, R)
>consensus
GACUGCCAGGUUGUCCAUGAACUGCACCACCGUUCGGAUAAUACGGUUGACGACCUCCAGAUGGUUGAUUAUCUGGAUAAUACGAAGGAGGCGGUGGAAAACGACCGA
.((((((.(((((((....(((((.....((....))......))))))))))))(((((((((....)))))))))............))))))............. (-19.74 = -21.97 +   2.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:29:03 2011