Locus 6104

Sequence ID dm3.chr3L
Location 3,718,520 – 3,718,631
Length 111
Max. P 0.997701
window8397 window8398

overview

Window 7

Location 3,718,520 – 3,718,631
Length 111
Sequences 5
Columns 123
Reading direction forward
Mean pairwise identity 64.81
Shannon entropy 0.60944
G+C content 0.37099
Mean single sequence MFE -31.13
Consensus MFE -8.87
Energy contribution -11.07
Covariance contribution 2.20
Combinations/Pair 1.35
Mean z-score -3.42
Structure conservation index 0.28
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.71
SVM RNA-class probability 0.994587
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3718520 111 + 24543557
UCGAGGAAGUUGAA-UGCCUACUAAGUAUUCUCAUGGUUGCCCAAGUAGUACGUCAAAUCGUAUUGAUGAUUAAAU-----------UCUUGAAUUUAGUUCGGCAUUCAGCUCCCGUUAUCU
.((.(((.((((((-((((.(((((((....(((.((((.......(((((((......))))))).......)))-----------)..))))))))))..)))))))))))))))...... ( -33.84, z-score =  -4.36, R)
>droSim1.chr3L 3257610 111 + 22553184
UCGAUGAAGCUGAA-UGCCUACUAA--AGUCAAGU---------AGUAGUAUGUCAAAUCGAAUUGAUGAUUAAAUGGUUCGGAAAUUCUUGAAUUUAGUUCGGCAUUCAGCUCCCAUUAUCU
..((((((((((((-((((.(((((--(.(((((.---------(((.(.....)...(((((((.((......)))))))))..)))))))).))))))..)))))))))))....))))). ( -34.60, z-score =  -4.48, R)
>droSec1.super_2 3710342 111 + 7591821
UCCAGGAAGCUGAA-UGCCUACUAA--AAUCAAGU---------AGUAGUAUGUCAAAUCGAAUUGAUGAUUAAAUGGUUCGGAAAUUCUUGAAUUUAGUUCGGCAUUCAGCUCCCAUUAUCU
....((.(((((((-((((.(((((--(.(((((.---------(((.(.....)...(((((((.((......)))))))))..)))))))).))))))..))))))))))).))....... ( -36.00, z-score =  -5.04, R)
>droYak2.chr3L 4270861 106 + 24197627
UCGGGAAAGGUAAAAUGCCUACUAA--AAUCAAGUAUUAUCAGGUUUGCCAUGUCAAACCAAAAUGAUAAUAGAAUU-------UAUUUUGGCAUUCAGCU-GGCAGGCAGUAUCU-------
.......(((((...(((((.....--.......((((((((((((((......))))))....)))))))).....-------....(..((.....)).-.).))))).)))))------- ( -25.10, z-score =  -1.66, R)
>droEre2.scaffold_4784 6413975 103 + 25762168
UCGAGCGAGGUGAA-UGUCAACUAA--AUUCAAAUA-----UGAUCUGGAUUGCCCGAUUCAAUUAAUGGG-AAAU-----------UCUUGAAUUUAGUUUGGCCUUCAGCUACCACAGUCU
.......((.((((-.(((((((((--((((((...-----......(((((.((((.(......).))))-.)))-----------)))))))))))).))))).)))).)).......... ( -26.10, z-score =  -1.56, R)
>consensus
UCGAGGAAGCUGAA_UGCCUACUAA__AAUCAAGU_________AGUAGUAUGUCAAAUCGAAUUGAUGAUUAAAU_________AUUCUUGAAUUUAGUUCGGCAUUCAGCUCCCAUUAUCU
....((.(((((((.((((................................((((((......))))))(((((((.................)))))))..))))))))))).))....... ( -8.87 = -11.07 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,718,520 – 3,718,631
Length 111
Sequences 5
Columns 123
Reading direction reverse
Mean pairwise identity 64.81
Shannon entropy 0.60944
G+C content 0.37099
Mean single sequence MFE -30.36
Consensus MFE -7.44
Energy contribution -9.04
Covariance contribution 1.60
Combinations/Pair 1.32
Mean z-score -3.96
Structure conservation index 0.25
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.16
SVM RNA-class probability 0.997701
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 3718520 111 - 24543557
AGAUAACGGGAGCUGAAUGCCGAACUAAAUUCAAGA-----------AUUUAAUCAUCAAUACGAUUUGACGUACUACUUGGGCAACCAUGAGAAUACUUAGUAGGCA-UUCAACUUCCUCGA
.......(((((.((((((((..(((((((((..((-----------......)).(((.((((......)))).....(((....))))))))))..))))).))))-)))).))))).... ( -33.70, z-score =  -4.89, R)
>droSim1.chr3L 3257610 111 - 22553184
AGAUAAUGGGAGCUGAAUGCCGAACUAAAUUCAAGAAUUUCCGAACCAUUUAAUCAUCAAUUCGAUUUGACAUACUACU---------ACUUGACU--UUAGUAGGCA-UUCAGCUUCAUCGA
........(((((((((((((..((((((.(((((.......((.........)).((((......)))).........---------.))))).)--))))).))))-)))))))))..... ( -35.50, z-score =  -5.98, R)
>droSec1.super_2 3710342 111 - 7591821
AGAUAAUGGGAGCUGAAUGCCGAACUAAAUUCAAGAAUUUCCGAACCAUUUAAUCAUCAAUUCGAUUUGACAUACUACU---------ACUUGAUU--UUAGUAGGCA-UUCAGCUUCCUGGA
.......((((((((((((((..((((((.(((((.......((.........)).((((......)))).........---------.))))).)--))))).))))-)))))))))).... ( -38.80, z-score =  -6.55, R)
>droYak2.chr3L 4270861 106 - 24197627
-------AGAUACUGCCUGCC-AGCUGAAUGCCAAAAUA-------AAUUCUAUUAUCAUUUUGGUUUGACAUGGCAAACCUGAUAAUACUUGAUU--UUAGUAGGCAUUUUACCUUUCCCGA
-------......(((((((.-.((.....)).....((-------((.((((((((((....((((((......))))))))))))))...)).)--))))))))))............... ( -24.40, z-score =  -2.48, R)
>droEre2.scaffold_4784 6413975 103 - 25762168
AGACUGUGGUAGCUGAAGGCCAAACUAAAUUCAAGA-----------AUUU-CCCAUUAAUUGAAUCGGGCAAUCCAGAUCA-----UAUUUGAAU--UUAGUUGACA-UUCACCUCGCUCGA
.((.((.(((....(((.....(((((((((((((.-----------....-..((.....)).(((.((....)).)))..-----..)))))))--))))))....-)))))).)).)).. ( -19.40, z-score =   0.11, R)
>consensus
AGAUAAUGGGAGCUGAAUGCCGAACUAAAUUCAAGAAU_________AUUUAAUCAUCAAUUCGAUUUGACAUACUACU_________ACUUGAAU__UUAGUAGGCA_UUCACCUUCCUCGA
.......(((((.((((((((..(((((..(((((....................(((.....))).((......))............)))))....))))).)))).)))).))))).... ( -7.44 =  -9.04 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:01:20 2011