Locus 11512

Sequence ID dm3.chr3R
Location 21,708,648 – 21,708,739
Length 91
Max. P 0.927486
window15817 window15818

overview

Window 7

Location 21,708,648 – 21,708,739
Length 91
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 72.65
Shannon entropy 0.45720
G+C content 0.28326
Mean single sequence MFE -18.89
Consensus MFE -11.11
Energy contribution -14.30
Covariance contribution 3.19
Combinations/Pair 1.08
Mean z-score -1.79
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.33
SVM RNA-class probability 0.927486
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21708648 91 + 27905053
----ACAGCUUUUCUAAAAGCUACCCUUAUAUUGUGU--UUCUUUCUCACGAAAUAAACUACUGUGUAGAAGGUAGCGGUAAAUAUUUAUGUUUAAA
----...............((((((.((((((.((((--((.((((....)))).)))).)).))))))..))))))..((((((....)))))).. ( -19.20, z-score =  -2.03, R)
>droSec1.super_13 491901 96 + 2104621
ACAUAUGUUUUUGCUAACAGCUACCCUUAUAUUGUGUAUUUCUUUCACAUAAAAAAAACUACUGUGUAAAAGGUAGCGGUAAAUAUUUAUGUUAAA-
(((((.((.((((((....((((((.((((((.((((.(((.((......)).))).)).)).))))))..)))))))))))).)).)))))....- ( -19.30, z-score =  -1.85, R)
>droEre2.scaffold_4820 4129514 93 - 10470090
--CUAUUUAUUUUUCCAAAGCUACAUUUAUAUUGUGUGCUUGUUCAAUUUAAAAUA--CUACUGUGCACAAGGUAGCGGUAAAUAUUUAUGUUUAAA
--.((..(((((..((...(((((.......(((((..(..((.............--..)).)..))))).))))))).)))))..))........ ( -15.46, z-score =  -0.47, R)
>droYak2.chr3R 4059291 84 - 28832112
-------------CUUUAGGCUACCUUUACAUUGUGUGCUUGUUUAAUUUAAAAUAAGCUACUAUUAACAAGGUAGCGGUAAAUAUUUAUGUUUAAG
-------------......((((((((......(((.((((((((......))))))))))).......))))))))..((((((....)))))).. ( -21.62, z-score =  -2.82, R)
>consensus
____AU_U_UUUUCUAAAAGCUACCCUUAUAUUGUGUGCUUCUUUAACAUAAAAUAAACUACUGUGUACAAGGUAGCGGUAAAUAUUUAUGUUUAAA
...................(((((((((((((.(((.((((((((......))))))))))).))))).)))))))).................... (-11.11 = -14.30 +   3.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,708,648 – 21,708,739
Length 91
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 72.65
Shannon entropy 0.45720
G+C content 0.28326
Mean single sequence MFE -16.25
Consensus MFE -9.98
Energy contribution -10.97
Covariance contribution 1.00
Combinations/Pair 1.31
Mean z-score -1.62
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.14
SVM RNA-class probability 0.898700
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21708648 91 - 27905053
UUUAAACAUAAAUAUUUACCGCUACCUUCUACACAGUAGUUUAUUUCGUGAGAAAGAA--ACACAAUAUAAGGGUAGCUUUUAGAAAAGCUGU----
....................((((((((.......((.((((.((((....)))).))--))))......))))))))...............---- ( -19.12, z-score =  -2.41, R)
>droSec1.super_13 491901 96 - 2104621
-UUUAACAUAAAUAUUUACCGCUACCUUUUACACAGUAGUUUUUUUUAUGUGAAAGAAAUACACAAUAUAAGGGUAGCUGUUAGCAAAAACAUAUGU
-....(((((..........(((((((((......(((.(((((((.....))))))).))).......)))))))))((((......))))))))) ( -20.02, z-score =  -2.49, R)
>droEre2.scaffold_4820 4129514 93 + 10470090
UUUAAACAUAAAUAUUUACCGCUACCUUGUGCACAGUAG--UAUUUUAAAUUGAACAAGCACACAAUAUAAAUGUAGCUUUGGAAAAAUAAAUAG--
............((((((..(((((..(((((....(((--(.......)))).....)))))..........)))))(((....))))))))).-- ( -10.10, z-score =   0.54, R)
>droYak2.chr3R 4059291 84 + 28832112
CUUAAACAUAAAUAUUUACCGCUACCUUGUUAAUAGUAGCUUAUUUUAAAUUAAACAAGCACACAAUGUAAAGGUAGCCUAAAG-------------
....................((((((((.......((.((((.(((......))).))))))........))))))))......------------- ( -15.76, z-score =  -2.12, R)
>consensus
UUUAAACAUAAAUAUUUACCGCUACCUUGUACACAGUAGUUUAUUUUAAAUGAAACAAGCACACAAUAUAAAGGUAGCUUUUAGAAAA_A_AU____
....................((((((((..........((((.((((....)))).))))..........))))))))................... ( -9.98 = -10.97 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:44:18 2011