Locus 2798

Sequence ID dm3.chr2L
Location 22,440,735 – 22,440,890
Length 155
Max. P 0.991359
window3853 window3854

overview

Window 3

Location 22,440,735 – 22,440,855
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.27
Shannon entropy 0.43365
G+C content 0.47328
Mean single sequence MFE -37.34
Consensus MFE -19.82
Energy contribution -19.86
Covariance contribution 0.04
Combinations/Pair 1.40
Mean z-score -2.17
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.934698
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22440735 120 - 23011544
UCCCUCAAUCGAUGCAUCUGGUCGUUACAGCACUCUUGCGACACUUUUACUGGUGUCGGUGUGUCUUGAAGCCUUAGAAAGCUAUCCGUACGAAUUCUAGGUAGUGCAUGUGGUGGUAUU
..((((((..((((((((...........(((....)))((((((......)))))))))))))))))).(((.((....((((.((............))))))...)).))))).... ( -29.00, z-score =   0.65, R)
>droSim1.chr2h_random 1259888 105 - 3178526
UCCCUCAAUCGAUGCAUCUAGGCGUUAAAGCACUCUUGUGACACUUGUUCUGGUGUCGGGGUGUCUUGAUGCCUUAGAAAGCUAUCCGUAGGGUUUCUAGGUAGU---------------
.((((..((.(((((.((((((((((((..((((((...((((((......))))))))))))..)))))))).))))..)).))).))))))............--------------- ( -38.60, z-score =  -3.52, R)
>droSec1.super_42 48741 105 - 298440
UCCCUCAAUCGAUGCAUCUAGGCGUUAAAGCACUCUUGUGACACUUGUUCUUGUGUCGGGGUGUCUUGAUGCCUUAGAAAGCUAUACGUAGGGUUUCUAGGUAGU---------------
.((((....((((((.((((((((((((..((((((...(((((........)))))))))))..)))))))).))))..)).)).)).))))............--------------- ( -36.30, z-score =  -3.12, R)
>droYak2.chr2R 20774275 120 + 21139217
UCCCUUAACCGAUGCAUUUGGCUGUUAAAACAUUCUUGCGACACCUGUUCUGGUGUUGGGGUAUCUUGAUGUCUUAAAAAGCUAUCUGUGCGGAUACUGGGUAGUCCAGGUGGUGGGGCC
.((((..(((...((((.(((((.((((.((((((((.(((((((......))))))))))......))))).))))..)))))...))))((((........)))).)))...)))).. ( -38.00, z-score =  -1.30, R)
>droEre2.scaffold_4784 24376539 118 - 25762168
UCCCUUGACCGGUACAUCUGGCUAUUAAAGCACUCUGACGACACUUUUUCUGUUGUCGGUGUGUUUUAAUGCCUUAAGAAGCUAUCGGUAGGGAUUCUAGG--GUUCAGGUGGCGGUGGC
(((((..((((((((.((((((.((((((((((.(((((((((.......))))))))).)))))))))))))...))).).)))))))))))).......--................. ( -44.80, z-score =  -3.55, R)
>consensus
UCCCUCAAUCGAUGCAUCUGGCCGUUAAAGCACUCUUGCGACACUUGUUCUGGUGUCGGGGUGUCUUGAUGCCUUAGAAAGCUAUCCGUAGGGAUUCUAGGUAGU_CA_GUGG_GG____
.((((..((.(((((.(((((.((((((.((((((...(((((((......))))))))))))).)))))).).))))..)).))).))))))........................... (-19.82 = -19.86 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 22,440,775 – 22,440,890
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.96
Shannon entropy 0.39320
G+C content 0.48036
Mean single sequence MFE -39.06
Consensus MFE -22.80
Energy contribution -22.32
Covariance contribution -0.48
Combinations/Pair 1.44
Mean z-score -2.82
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.47
SVM RNA-class probability 0.991359
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22440775 115 - 23011544
-----AAGGUAUCUACUGUGGUUUCGCCGUUCGCCUGGGCUCCCUCAAUCGAUGCAUCUGGUCGUUACAGCACUCUUGCGACACUUUUACUGGUGUCGGUGUGUCUUGAAGCCUUAGAAA
-----..........(((.(((((((((.........)))..........((((((((...........(((....)))((((((......))))))))))))))..)))))).)))... ( -33.60, z-score =  -0.95, R)
>droSim1.chr2h_random 1259913 120 - 3178526
GUGGUAUCGUAUCUGCUAUGGUGUCGAAGUUUGCUCGGUCUCCCUCAAUCGAUGCAUCUAGGCGUUAAAGCACUCUUGUGACACUUGUUCUGGUGUCGGGGUGUCUUGAUGCCUUAGAAA
.((..((((((.....))))))..)).....((((((((........))))).)))((((((((((((..((((((...((((((......))))))))))))..)))))))).)))).. ( -43.50, z-score =  -4.05, R)
>droSec1.super_42 48766 120 - 298440
GAGGUAUCGUAUCUGCUAUGAUGUCGAAGUUUGCUCGGGCUCCCUCAAUCGAUGCAUCUAGGCGUUAAAGCACUCUUGUGACACUUGUUCUUGUGUCGGGGUGUCUUGAUGCCUUAGAAA
((((..(((((((......)))).)))(((((....))))).))))..........((((((((((((..((((((...(((((........)))))))))))..)))))))).)))).. ( -42.30, z-score =  -3.27, R)
>droYak2.chr2R 20774315 115 + 21139217
-----ACGGUAUCUGCUGCGGAGUGGCCGUUCGUCUGGGAUCCCUUAACCGAUGCAUUUGGCUGUUAAAACAUUCUUGCGACACCUGUUCUGGUGUUGGGGUAUCUUGAUGUCUUAAAAA
-----(((((.((((...))))...))))).((((.(((((((((........(((...(..(((....)))..).)))((((((......)))))))))).)))))))))......... ( -32.70, z-score =  -0.85, R)
>droEre2.scaffold_4784 24376577 115 - 25762168
-----GAGGUAUCUAUUGUGGUGUCGCCGUUCGUCUAGGCUCCCUUGACCGGUACAUCUGGCUAUUAAAGCACUCUGACGACACUUUUUCUGUUGUCGGUGUGUUUUAAUGCCUUAAGAA
-----......(((.....(((((.((((...(((.(((...))).)))))))))))).(((.((((((((((.(((((((((.......))))))))).)))))))))))))...))). ( -43.20, z-score =  -4.97, R)
>consensus
_____AAGGUAUCUGCUGUGGUGUCGCCGUUCGCCUGGGCUCCCUCAAUCGAUGCAUCUGGCCGUUAAAGCACUCUUGCGACACUUGUUCUGGUGUCGGGGUGUCUUGAUGCCUUAGAAA
........(((((.((.(((....))).))......((....))......))))).(((((.((((((.((((((...(((((((......))))))))))))).)))))).).)))).. (-22.80 = -22.32 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:58:12 2011