Locus 5119

Sequence ID dm3.chr2R
Location 17,869,872 – 17,869,966
Length 94
Max. P 0.861369
window7024 window7025

overview

Window 4

Location 17,869,872 – 17,869,966
Length 94
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 79.52
Shannon entropy 0.38537
G+C content 0.54247
Mean single sequence MFE -27.12
Consensus MFE -19.60
Energy contribution -20.13
Covariance contribution 0.53
Combinations/Pair 1.24
Mean z-score -1.05
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.518202
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17869872 94 + 21146708
UGGACAAGUUUUCCGAGGAGUUUGCGGGGAAUUUGGAGGUCGGAAAAACAGUUAUCAACACCCGGAAAAGCGGGUGGGCGAG------UCCAGAAUAGGG---
((((((((((..(((.........)))..)))))....((((......).........((((((......)))))))))..)------))))........--- ( -28.90, z-score =  -2.00, R)
>droEre2.scaffold_4845 12004392 103 + 22589142
UGGACAAGUUUUCCGAGGAGUUUGCGGGGGAUUUGGAGGUCGGAAAAACAGUUAUCAACACCCGGAAAAGCGGGUGGGGGAGGGCGCGUCCAGAAAGGGAGGG
((((((((((..(((.........)))..)))))................((..((..((((((......))))))...))..))..)))))........... ( -32.00, z-score =  -1.82, R)
>droYak2.chr2R 9826824 97 - 21139217
UGGACAAGUUUUCCGAGGAGUUUGCGGGGGAUUUGGAGGUCGGAAAAACAGUUAUCAACACCCGGAAAAGCGGGUGUGGGCG----CAUCCAAAAAGGGGG--
((((((((((..(((.........)))..))))))...............(((....(((((((......))))))).))).----..)))).........-- ( -29.90, z-score =  -1.60, R)
>droSec1.super_9 1181931 94 + 3197100
UGGACAAGUUUUCCGAGGAGUUUGCGGGGAAUUUGGAGGUCGGAAAAACAGUUAUCAACACCCGGAAAAGCGGGUGGGCGAG------UCCAGAAUGGGG---
((((((((((..(((.........)))..)))))....((((......).........((((((......)))))))))..)------))))........--- ( -28.90, z-score =  -1.62, R)
>droSim1.chr2R 16510224 94 + 19596830
UGGACAAGUUUUCCGAGGAGUUUGCGGGGAAUUUGGAGGUCGGAAAAACAGUUAUCAACACACGGAAAAGCGGGUGGGCGAG------UCCAGAAUGGGG---
((((((((((..(((.........)))..)))))....((((......).........(((.((......)).))))))..)------))))........--- ( -21.90, z-score =  -0.28, R)
>droAna3.scaffold_13266 11244669 91 + 19884421
UGGAUAAGUUUUCCCAGA-----GUGGAGGGUGUGGGGUCCGGAAAAACAGUUAUCAACACCAGGGGACAGAGGACGUCGGCAGGAGGCUCAGGGG-------
............(((.((-----((.....((.(((.((((((.................)).(....)...)))).))))).....)))).))).------- ( -21.13, z-score =   1.00, R)
>consensus
UGGACAAGUUUUCCGAGGAGUUUGCGGGGAAUUUGGAGGUCGGAAAAACAGUUAUCAACACCCGGAAAAGCGGGUGGGCGAG______UCCAGAAUGGGG___
(((((((((((((((.........))))))))))).......................((((((......))))))............))))........... (-19.60 = -20.13 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,869,872 – 17,869,966
Length 94
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 79.52
Shannon entropy 0.38537
G+C content 0.54247
Mean single sequence MFE -20.26
Consensus MFE -12.83
Energy contribution -13.72
Covariance contribution 0.89
Combinations/Pair 1.11
Mean z-score -1.82
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.861369
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17869872 94 - 21146708
---CCCUAUUCUGGA------CUCGCCCACCCGCUUUUCCGGGUGUUGAUAACUGUUUUUCCGACCUCCAAAUUCCCCGCAAACUCCUCGGAAAACUUGUCCA
---.........(((------((((..((((((......)))))).))).......((((((((.......................))))))))...)))). ( -22.00, z-score =  -2.60, R)
>droEre2.scaffold_4845 12004392 103 - 22589142
CCCUCCCUUUCUGGACGCGCCCUCCCCCACCCGCUUUUCCGGGUGUUGAUAACUGUUUUUCCGACCUCCAAAUCCCCCGCAAACUCCUCGGAAAACUUGUCCA
............((((...........((((((......))))))...........((((((((.......................))))))))...)))). ( -22.40, z-score =  -2.45, R)
>droYak2.chr2R 9826824 97 + 21139217
--CCCCCUUUUUGGAUG----CGCCCACACCCGCUUUUCCGGGUGUUGAUAACUGUUUUUCCGACCUCCAAAUCCCCCGCAAACUCCUCGGAAAACUUGUCCA
--.........(((((.----...(.(((((((......))))))).)........((((((((.......................))))))))...))))) ( -22.00, z-score =  -1.90, R)
>droSec1.super_9 1181931 94 - 3197100
---CCCCAUUCUGGA------CUCGCCCACCCGCUUUUCCGGGUGUUGAUAACUGUUUUUCCGACCUCCAAAUUCCCCGCAAACUCCUCGGAAAACUUGUCCA
---.........(((------((((..((((((......)))))).))).......((((((((.......................))))))))...)))). ( -22.00, z-score =  -2.38, R)
>droSim1.chr2R 16510224 94 - 19596830
---CCCCAUUCUGGA------CUCGCCCACCCGCUUUUCCGUGUGUUGAUAACUGUUUUUCCGACCUCCAAAUUCCCCGCAAACUCCUCGGAAAACUUGUCCA
---.........(((------((((..(((.((......)).))).))).......((((((((.......................))))))))...)))). ( -14.90, z-score =  -0.97, R)
>droAna3.scaffold_13266 11244669 91 - 19884421
-------CCCCUGAGCCUCCUGCCGACGUCCUCUGUCCCCUGGUGUUGAUAACUGUUUUUCCGGACCCCACACCCUCCAC-----UCUGGGAAAACUUAUCCA
-------......(((..((....((((.....))))....)).)))(((((..(((((((((((...............-----)))))))))))))))).. ( -18.26, z-score =  -0.64, R)
>consensus
___CCCCAUUCUGGA______CUCGCCCACCCGCUUUUCCGGGUGUUGAUAACUGUUUUUCCGACCUCCAAAUCCCCCGCAAACUCCUCGGAAAACUUGUCCA
...........((((............((((((......))))))...........((((((((.......................))))))))....)))) (-12.83 = -13.72 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:42:11 2011