Locus 5039

Sequence ID dm3.chr2R
Location 17,302,430 – 17,302,521
Length 91
Max. P 0.552305
window6920 window6921

overview

Window 0

Location 17,302,430 – 17,302,520
Length 90
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 80.83
Shannon entropy 0.35997
G+C content 0.44811
Mean single sequence MFE -16.33
Consensus MFE -10.61
Energy contribution -11.92
Covariance contribution 1.31
Combinations/Pair 1.20
Mean z-score -1.45
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.552305
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17302430 90 - 21146708
UUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUU-CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAAUAAUUCCCCUC
......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....)))).................... ( -16.50, z-score =  -2.12, R)
>droSim1.chr2R 15956342 89 - 19596830
UUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAGU-AUUACCCUC
......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-......... ( -16.50, z-score =  -1.70, R)
>droSec1.super_9 633395 89 - 3197100
UUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAGU-AUUACCCUC
......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-......... ( -16.50, z-score =  -1.70, R)
>droYak2.chr2R 9254862 88 + 21139217
UUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CACUCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCAUUAAAU-AUUCCCUC-
......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-........- ( -16.50, z-score =  -2.44, R)
>droEre2.scaffold_4845 11446918 88 - 22589142
UUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CGCUCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCAUUAAAU-AUUCCCUC-
......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-........- ( -16.50, z-score =  -1.99, R)
>droPer1.super_4 3690255 85 + 7162766
UUAAAUGAGCAUUCAGCAAUCGGAUCACAGCCGGAUCGAACUGUUUUUUGCGACCCAU---UCCACUGGAAAUCGUUAUGUGGCGCUC---
......((((((((.......))))....(((((.(((............))).)).(---(((...))))..........)))))))--- ( -15.50, z-score =   1.27, R)
>consensus
UUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC_CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAAU_AUUCCCCU_
......((((.....(((..((((..(((((((((........))))))))).))))..))).....)))).................... (-10.61 = -11.92 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 17,302,430 – 17,302,521
Length 91
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 80.68
Shannon entropy 0.36312
G+C content 0.44502
Mean single sequence MFE -16.33
Consensus MFE -10.61
Energy contribution -11.92
Covariance contribution 1.31
Combinations/Pair 1.20
Mean z-score -1.40
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.518798
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17302430 91 - 21146708
AUUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUU-CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAAUAAUUCCCCUC
.......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....)))).................... ( -16.50, z-score =  -2.13, R)
>droSim1.chr2R 15956342 90 - 19596830
AUUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAGU-AUUACCCUC
.......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-......... ( -16.50, z-score =  -1.68, R)
>droSec1.super_9 633395 90 - 3197100
AUUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAGU-AUUACCCUC
.......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-......... ( -16.50, z-score =  -1.68, R)
>droYak2.chr2R 9254862 89 + 21139217
AUUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CACUCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCAUUAAAU-AUUCCCUC-
.......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-........- ( -16.50, z-score =  -2.43, R)
>droEre2.scaffold_4845 11446918 89 - 22589142
AUUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC-CGCUCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCAUUAAAU-AUUCCCUC-
.......((((.....(((..((((..(((((((((..-.....))))))))).))))..))).....))))..........-........- ( -16.50, z-score =  -1.99, R)
>droPer1.super_4 3690255 86 + 7162766
GUUAAAUGAGCAUUCAGCAAUCGGAUCACAGCCGGAUCGAACUGUUUUUUGCGACCCAU---UCCACUGGAAAUCGUUAUGUGGCGCUC---
.......((((((((.......))))....(((((.(((............))).)).(---(((...))))..........)))))))--- ( -15.50, z-score =   1.51, R)
>consensus
AUUAAAUGAGCCUGCCACAAUUGAAUCAGCGGUAGAUC_CGCCCUUUAUCGCUUUUCAUCUGUCCACUGUUCCGCACUAAAU_AUUCCCCU_
.......((((.....(((..((((..(((((((((........))))))))).))))..))).....)))).................... (-10.61 = -11.92 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:40:45 2011