Locus 4446

Sequence ID dm3.chr2R
Location 13,095,500 – 13,095,604
Length 104
Max. P 0.939536
window6087 window6088

overview

Window 7

Location 13,095,500 – 13,095,604
Length 104
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 86.05
Shannon entropy 0.26302
G+C content 0.41663
Mean single sequence MFE -34.98
Consensus MFE -28.75
Energy contribution -30.03
Covariance contribution 1.28
Combinations/Pair 1.09
Mean z-score -2.00
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.46
SVM RNA-class probability 0.939536
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 13095500 104 + 21146708
AAAAAGGCGCAAAGCUGCAGCUGCAUCAACAAAGAAGGCAGCUGACAAAAGCUUCAGUUUUGUAAGG-AAAGCUUCGU-UUGAAAAGCUUUUGUAAUGCAGUUUUG
.........(((((((((((((((.((......))..)))))).(((((((((((((...((.(((.-....))))).-))))..)))))))))...))))))))) ( -34.20, z-score =  -1.88, R)
>droSim1.chr2R 11826382 104 + 19596830
AAAAAGGCGCAAAGCUGCAGCUGCAUCAACAAAGAAGGCAGCUGACAAAAGCUUGAGUUUUGUAAGG-AAAGCUUCGU-UUAAAAAGCUUUUGUAAUGCAGUUUUG
.........(((((((((((((((.((......))..)))))).(((((((((((((((((......-)))))))...-.....))))))))))...))))))))) ( -35.60, z-score =  -2.69, R)
>droSec1.super_1 10599014 104 + 14215200
AAAAAGGCGCAAAGCUGCAGCUGCAUCAACAAAGAAGGCAGCUGACAAAAGCUUGAGUUUUGUAAGG-AAAGCUUCGU-UUAAAAAGCUUUUGUAAUGCAGUUUUG
.........(((((((((((((((.((......))..)))))).(((((((((((((((((......-)))))))...-.....))))))))))...))))))))) ( -35.60, z-score =  -2.69, R)
>droYak2.chr2R 2764031 103 - 21139217
AAAAAGGCGCAAAGCUGCAGCUGCAUCAGCAAGGAAGGCAGCUGACAAAAGCUUGAGUUUUGAA-GG-AAAGCUUGCU-UCAAAAAGCUUUUGUAAUGCAGUUUUG
.........(((((((((((((((.((......))..)))))).((((((((((....((((((-(.-(.....).))-)))))))))))))))...))))))))) ( -38.00, z-score =  -2.14, R)
>droEre2.scaffold_4845 9831144 104 - 22589142
AAAAAGGCGCAAAGCUGCAGCUGCAUCAACAGGGAAGGCAGCUGACAAAAGCUUGAGUUUCGUAUGG-AAAGCUUGCU-UCAAAAAGCUUUUGUAAUGCAGUUUUG
.........(((((((((((((((.((......))..)))))).((((((((((((((((.......-.))))))...-.....))))))))))...))))))))) ( -33.90, z-score =  -1.32, R)
>droAna3.scaffold_13266 6363757 105 - 19884421
CAAACAUUGUAAAGCUGCAGCUGCAACAGCCAA-AGGACAGCUGCCAAGAGCUUUAUGUCCUUAUGCCAGAGCUUCAAGCUGAAAAGCUUUUCAACUGCAGUUUUG
.........(((((((((((..((....((..(-((((((...((.....))....)))))))..))....))...(((((....))))).....))))))))))) ( -32.60, z-score =  -1.27, R)
>consensus
AAAAAGGCGCAAAGCUGCAGCUGCAUCAACAAAGAAGGCAGCUGACAAAAGCUUGAGUUUUGUAAGG_AAAGCUUCGU_UUAAAAAGCUUUUGUAAUGCAGUUUUG
.........(((((((((((((((.((......))..)))))).(((((((((((((((((.......))))))).........))))))))))...))))))))) (-28.75 = -30.03 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,095,500 – 13,095,604
Length 104
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 86.05
Shannon entropy 0.26302
G+C content 0.41663
Mean single sequence MFE -29.54
Consensus MFE -22.49
Energy contribution -22.91
Covariance contribution 0.42
Combinations/Pair 1.08
Mean z-score -1.72
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.745925
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 13095500 104 - 21146708
CAAAACUGCAUUACAAAAGCUUUUCAA-ACGAAGCUUU-CCUUACAAAACUGAAGCUUUUGUCAGCUGCCUUCUUUGUUGAUGCAGCUGCAGCUUUGCGCCUUUUU
((((.((((...(((((((((((....-...(((....-.)))........))))))))))).((((((..((......)).)))))))))).))))......... ( -30.06, z-score =  -2.39, R)
>droSim1.chr2R 11826382 104 - 19596830
CAAAACUGCAUUACAAAAGCUUUUUAA-ACGAAGCUUU-CCUUACAAAACUCAAGCUUUUGUCAGCUGCCUUCUUUGUUGAUGCAGCUGCAGCUUUGCGCCUUUUU
((((.((((...((((((((((.....-...(((....-.))).........)))))))))).((((((..((......)).)))))))))).))))......... ( -27.93, z-score =  -2.17, R)
>droSec1.super_1 10599014 104 - 14215200
CAAAACUGCAUUACAAAAGCUUUUUAA-ACGAAGCUUU-CCUUACAAAACUCAAGCUUUUGUCAGCUGCCUUCUUUGUUGAUGCAGCUGCAGCUUUGCGCCUUUUU
((((.((((...((((((((((.....-...(((....-.))).........)))))))))).((((((..((......)).)))))))))).))))......... ( -27.93, z-score =  -2.17, R)
>droYak2.chr2R 2764031 103 + 21139217
CAAAACUGCAUUACAAAAGCUUUUUGA-AGCAAGCUUU-CC-UUCAAAACUCAAGCUUUUGUCAGCUGCCUUCCUUGCUGAUGCAGCUGCAGCUUUGCGCCUUUUU
((((.((((...(((((((((((((((-((........-.)-))))))....)))))))))).((((((..((......)).)))))))))).))))......... ( -31.50, z-score =  -2.18, R)
>droEre2.scaffold_4845 9831144 104 + 22589142
CAAAACUGCAUUACAAAAGCUUUUUGA-AGCAAGCUUU-CCAUACGAAACUCAAGCUUUUGUCAGCUGCCUUCCCUGUUGAUGCAGCUGCAGCUUUGCGCCUUUUU
((((.((((...((((((((((...((-((....))))-......(.....))))))))))).((((((..((......)).)))))))))).))))......... ( -27.20, z-score =  -1.17, R)
>droAna3.scaffold_13266 6363757 105 + 19884421
CAAAACUGCAGUUGAAAAGCUUUUCAGCUUGAAGCUCUGGCAUAAGGACAUAAAGCUCUUGGCAGCUGUCCU-UUGGCUGUUGCAGCUGCAGCUUUACAAUGUUUG
.(((.(((((((((...((((((.......))))))..(((..(((((((....((.....))...))))))-)..)))....))))))))).))).......... ( -32.60, z-score =  -0.26, R)
>consensus
CAAAACUGCAUUACAAAAGCUUUUUAA_ACGAAGCUUU_CCUUACAAAACUCAAGCUUUUGUCAGCUGCCUUCUUUGUUGAUGCAGCUGCAGCUUUGCGCCUUUUU
((((.((((...((((((((((..............................)))))))))).((((((..((......)).)))))))))).))))......... (-22.49 = -22.91 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:29:17 2011