Locus 9440

Sequence ID dm3.chr3R
Location 6,728,374 – 6,728,477
Length 103
Max. P 0.915292
window12946 window12947

overview

Window 6

Location 6,728,374 – 6,728,477
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 80.98
Shannon entropy 0.33160
G+C content 0.32240
Mean single sequence MFE -18.70
Consensus MFE -11.77
Energy contribution -11.13
Covariance contribution -0.64
Combinations/Pair 1.29
Mean z-score -1.66
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.550013
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 6728374 103 + 27905053
UGGCUUCAUCAAGCAAAUUUUGCGAUGAUGAAUGGAAAAAAAAAAUCGUUCAAUUCCUUGAAUUUCUUACUUUUUUUUUUUGUUCUUGCCUUGCUGUAUCUAC
.(((.(((((..(((.....)))))))).(((..((((((((((...((((((....)))))).......))))))))))..)))..)))............. ( -22.20, z-score =  -2.57, R)
>droSim1.chr3R 12887503 90 - 27517382
UGGCUUCAUCAAGCAAAUUUUGCGAUGAUGAAUGGAAAAAAAAA-UCGUUCAAUUUCUUAGGAUU------------UUUUGUUCUUGCCUUACUGUAUCUAC
.((((((((((.(((.....)))..))))))).((((.((((((-((.(..........).))))------------)))).)))).)))............. ( -20.90, z-score =  -2.52, R)
>droSec1.super_0 5897383 89 - 21120651
UGGCUUCAUCAAGCAAAUUUUGCGAUGAUGAAUGGAAAAAAAA--UCGUUCAAUUUCUUAGAAUU------------UUUUGUUCUUGCCUUACUGUAUCUAC
.((((((((((.(((.....)))..))))))).((((...(((--..((((.........)))).------------.))).)))).)))............. ( -17.30, z-score =  -1.47, R)
>droYak2.chr3R 10764198 89 + 28832112
UGACUUCAUCAAGCAAAUUUUGCGAUGAUGAAUGGGA-AAAAAAUUCGUCCAAUUUCUUGGCUUU-------------UUUGUUCUUGCUUUGCGGUAUUUAC
....(((((((.(((.....)))..))))))).((((-(.((((...(.((((....)))))..)-------------))).)))))................ ( -15.20, z-score =   0.21, R)
>droEre2.scaffold_4770 2866583 90 - 17746568
UGGCUUCAUCAAGCAAAUUUUGCGAUGAUGAAUGGAACAAAAAAUUCGUUCAAUUUCUUGGCUUU-------------UUUGUUCUUGCUUUACGGUAUUUAC
.((((((((((.(((.....)))..))))))).(((((((((((..((..........))..)))-------------)))))))).)))............. ( -21.40, z-score =  -2.55, R)
>droAna3.scaffold_13340 11308390 95 - 23697760
CGGCUUCAUCAAGUAAAUUUUGCGAUGAUGAAUGAAA--AUAUAUUCUUUCAAUUUCUUGGGUUU------UUUUUUUUUUGUUUUCGCUCCACUUUACUGUC
...........((((((....((((.((..((.((((--(...((((............))))..------.))))).))..)).)))).....))))))... ( -15.20, z-score =  -1.04, R)
>consensus
UGGCUUCAUCAAGCAAAUUUUGCGAUGAUGAAUGGAAAAAAAAAUUCGUUCAAUUUCUUGGAUUU____________UUUUGUUCUUGCCUUACUGUAUCUAC
.((((((((((.(((.....)))..)))))))((((............))))...................................)))............. (-11.77 = -11.13 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 6,728,374 – 6,728,477
Length 103
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 80.98
Shannon entropy 0.33160
G+C content 0.32240
Mean single sequence MFE -18.73
Consensus MFE -10.71
Energy contribution -10.52
Covariance contribution -0.19
Combinations/Pair 1.13
Mean z-score -2.46
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.24
SVM RNA-class probability 0.915292
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 6728374 103 - 27905053
GUAGAUACAGCAAGGCAAGAACAAAAAAAAAAAGUAAGAAAUUCAAGGAAUUGAACGAUUUUUUUUUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCA
.............(((........(((((((((((....(((((...))))).....)))))))))))...(((((((..(((.....))).)))))))))). ( -21.80, z-score =  -2.27, R)
>droSim1.chr3R 12887503 90 + 27517382
GUAGAUACAGUAAGGCAAGAACAAAA------------AAUCCUAAGAAAUUGAACGA-UUUUUUUUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCA
.............(((..(((.((((------------((((.(((....)))...))-)))))).)))..(((((((..(((.....))).)))))))))). ( -21.80, z-score =  -3.61, R)
>droSec1.super_0 5897383 89 + 21120651
GUAGAUACAGUAAGGCAAGAACAAAA------------AAUUCUAAGAAAUUGAACGA--UUUUUUUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCA
.............(((..(((.((((------------((((.(((....)))...))--)))))))))..(((((((..(((.....))).)))))))))). ( -18.80, z-score =  -2.38, R)
>droYak2.chr3R 10764198 89 - 28832112
GUAAAUACCGCAAAGCAAGAACAAA-------------AAAGCCAAGAAAUUGGACGAAUUUUUU-UCCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGUCA
..................(((.(((-------------(..(((((....)))).)...)))).)-))...(((((((..(((.....))).))))))).... ( -16.10, z-score =  -1.42, R)
>droEre2.scaffold_4770 2866583 90 + 17746568
GUAAAUACCGUAAAGCAAGAACAAA-------------AAAGCCAAGAAAUUGAACGAAUUUUUUGUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCA
..............((..(((((((-------------(((..(((....)))......))))))))))..(((((((..(((.....))).))))))))).. ( -20.70, z-score =  -3.57, R)
>droAna3.scaffold_13340 11308390 95 + 23697760
GACAGUAAAGUGGAGCGAAAACAAAAAAAAAA------AAACCCAAGAAAUUGAAAGAAUAUAU--UUUCAUUCAUCAUCGCAAAAUUUACUUGAUGAAGCCG
..((...(((((((((((..............------.....(((....)))...((((....--....))))....))))....)))))))..))...... ( -13.20, z-score =  -1.51, R)
>consensus
GUAAAUACAGUAAAGCAAGAACAAAA____________AAACCCAAGAAAUUGAACGAAUUUUUUUUUCCAUUCAUCAUCGCAAAAUUUGCUUGAUGAAGCCA
..............((...........................(((....)))..................(((((((..(((.....))).))))))))).. (-10.71 = -10.52 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:04:29 2011