Locus 10573

Sequence ID dm3.chr3R
Location 14,814,809 – 14,814,901
Length 92
Max. P 0.986771
window14534 window14535

overview

Window 4

Location 14,814,809 – 14,814,901
Length 92
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 67.41
Shannon entropy 0.63205
G+C content 0.53776
Mean single sequence MFE -34.22
Consensus MFE -16.12
Energy contribution -15.05
Covariance contribution -1.07
Combinations/Pair 1.75
Mean z-score -1.91
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.25
SVM RNA-class probability 0.986771
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14814809 92 + 27905053
GAGAUUGGCAAGA-GCAGCCAUAUC--------GCCAAUAUCGACGGCAGCAACGGGUUGCGUUGCUGUUGCGUCUGGAAUCUGCAGAUUGAUUGCCGAUC
..(((((((((..-(((((......--------(((.........)))(((((((.....))))))))))))(((((.......)))))...))))))))) ( -35.40, z-score =  -2.10, R)
>droSim1.chr3R 20860206 100 - 27517382
GAGAUUGGCAACA-GCAGCCAUAUCCCAAUAUCGCCAAUAUCGGCGGCAGCAACGGGUUGCGUUGCUGUUGCGUCUGGAAUCUGCAGAUUGAUUGCCGAUC
..(((((((((((-(((...............((((......))))(((((((((.....))))))))))))(((((.......))))))).))))))))) ( -39.30, z-score =  -2.43, R)
>droSec1.super_166 29502 100 - 36471
GAGAUUGGCAACA-GCAGCCAUAUCCCAAUAUCGCCAAUAUCGGCGGCAGCAACGGGUUGCGUUGCUGUUGCGUCUGGAAUCUGCAGAUUGAUUGCCGAUC
..(((((((((((-(((...............((((......))))(((((((((.....))))))))))))(((((.......))))))).))))))))) ( -39.30, z-score =  -2.43, R)
>droEre2.scaffold_4770 10931934 81 - 17746568
--GAAUGGCAACA-GCAGC-----------------AAUAUCGGCGGCAGCAACGGGUUGCGUUGCUGUUGCGUCUGGAAUCUGUAGAUUGAUUGCCGAUC
--((.((((((((-.....-----------------.......((((((((((((.....))))))))))))(((((.......))))))).)))))).)) ( -29.90, z-score =  -1.78, R)
>dp4.chr2 14934669 83 + 30794189
GAGACGGGGAGGA-GAGGGAGAG----------GAGAAGAUUGCUUGUUGC-----GUGCCGCUCCU--CGCGACUGGAAUCUGCAGAUUGAUUGCCGAUC
......(.(((((-(.((.((..----------((.(((....))).)).)-----.).)).)))))--).)((.(((((((........)))).))).)) ( -22.30, z-score =   0.81, R)
>droWil1.scaffold_181089 4103082 101 - 12369635
GGAAGUGGUAAGAUGCAGUUUGGUCUGGGUCUGGCUAUGGCUAUGGCUAUGGGCCUGGGCCUAUGGUUGGACGACUGGAAUCUGCAGAUUGAUUGUCGAUC
.((.....(((..(((((((..(((...(((..(((((((((..(((.....)))..)))).)))))..))))))..))..)))))..)))....)).... ( -39.10, z-score =  -3.51, R)
>consensus
GAGAUUGGCAACA_GCAGCCAUAUC________GCCAAUAUCGGCGGCAGCAACGGGUUGCGUUGCUGUUGCGUCUGGAAUCUGCAGAUUGAUUGCCGAUC
......(((((..............................((((((((((..........)))))))))).(((((.......)))))...))))).... (-16.12 = -15.05 +  -1.07)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,814,809 – 14,814,901
Length 92
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 67.41
Shannon entropy 0.63205
G+C content 0.53776
Mean single sequence MFE -27.48
Consensus MFE -8.06
Energy contribution -11.17
Covariance contribution 3.11
Combinations/Pair 1.10
Mean z-score -1.95
Structure conservation index 0.29
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.34
SVM RNA-class probability 0.650854
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14814809 92 - 27905053
GAUCGGCAAUCAAUCUGCAGAUUCCAGACGCAACAGCAACGCAACCCGUUGCUGCCGUCGAUAUUGGC--------GAUAUGGCUGC-UCUUGCCAAUCUC
.((((.((((.((((....))))...((((...((((((((.....)))))))).))))...)))).)--------))).((((...-....))))..... ( -30.30, z-score =  -2.10, R)
>droSim1.chr3R 20860206 100 + 27517382
GAUCGGCAAUCAAUCUGCAGAUUCCAGACGCAACAGCAACGCAACCCGUUGCUGCCGCCGAUAUUGGCGAUAUUGGGAUAUGGCUGC-UGUUGCCAAUCUC
(((.((((((......((..(((((((......((((((((.....)))))))).(((((....)))))...)))))))...))...-.)))))).))).. ( -37.50, z-score =  -2.67, R)
>droSec1.super_166 29502 100 + 36471
GAUCGGCAAUCAAUCUGCAGAUUCCAGACGCAACAGCAACGCAACCCGUUGCUGCCGCCGAUAUUGGCGAUAUUGGGAUAUGGCUGC-UGUUGCCAAUCUC
(((.((((((......((..(((((((......((((((((.....)))))))).(((((....)))))...)))))))...))...-.)))))).))).. ( -37.50, z-score =  -2.67, R)
>droEre2.scaffold_4770 10931934 81 + 17746568
GAUCGGCAAUCAAUCUACAGAUUCCAGACGCAACAGCAACGCAACCCGUUGCUGCCGCCGAUAUU-----------------GCUGC-UGUUGCCAUUC--
....(((((..((((....)))).(((..((((((((((((.....)))))))).........))-----------------))..)-)))))))....-- ( -23.80, z-score =  -2.12, R)
>dp4.chr2 14934669 83 - 30794189
GAUCGGCAAUCAAUCUGCAGAUUCCAGUCGCG--AGGAGCGGCAC-----GCAACAAGCAAUCUUCUC----------CUCUCCCUC-UCCUCCCCGUCUC
(((.((.((((........)))))).)))..(--(((((.((...-----((.....))...)).)))----------)))......-............. ( -18.70, z-score =  -0.66, R)
>droWil1.scaffold_181089 4103082 101 + 12369635
GAUCGACAAUCAAUCUGCAGAUUCCAGUCGUCCAACCAUAGGCCCAGGCCCAUAGCCAUAGCCAUAGCCAGACCCAGACCAAACUGCAUCUUACCACUUCC
((.((((....((((....))))...))))))........(((...(((.....)))...)))......(((..(((......)))..))).......... ( -17.10, z-score =  -1.50, R)
>consensus
GAUCGGCAAUCAAUCUGCAGAUUCCAGACGCAACAGCAACGCAACCCGUUGCUGCCGCCGAUAUUGGC________GAUAUGGCUGC_UCUUGCCAAUCUC
(((.(((((..((((....))))..........((((((((.....))))))))....................................))))).))).. ( -8.06 = -11.17 +   3.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:26:27 2011