Locus 4913

Sequence ID dm3.chr2R
Location 16,339,487 – 16,339,585
Length 98
Max. P 0.960987
window6757 window6758

overview

Window 7

Location 16,339,487 – 16,339,581
Length 94
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 90.35
Shannon entropy 0.18445
G+C content 0.53916
Mean single sequence MFE -35.42
Consensus MFE -27.22
Energy contribution -27.37
Covariance contribution 0.14
Combinations/Pair 1.20
Mean z-score -2.66
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.69
SVM RNA-class probability 0.960987
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16339487 94 - 21146708
GCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGUUGCAUCACCGGCAACCACUAACCAU
((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))--.))))).....))))............. ( -34.80, z-score =  -2.67, R)
>droAna3.scaffold_13266 16933633 96 + 19884421
GCGGCAGCUUAAUGUUGAUUAGCUGUCGCAGCCACAGGAUCGGUAUGCACAUUGGCAUUAGCGAAUACCACUGCAACACCGGCAACCGCUAACCAU
(((((((((.(((....))))))))))))(((.....(.(((((.((((...(((.(((....))).))).))))..))))))....)))...... ( -29.20, z-score =  -0.97, R)
>droEre2.scaffold_4845 10485379 93 - 22589142
GCCGCAGCUUAAUGCUGAUUAGCAGCGGCCGCAGCC-AAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGUUGCACCACCGGCAACCACUAACCAU
((((((((.....))))....(((((((((((.(((-....)))((((......))))..))))).--)))))).....))))............. ( -41.70, z-score =  -3.79, R)
>droYak2.chr2R 8280287 93 + 21139217
GCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCC-AAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGCUGCACCACCGGCAACCACUAACCAU
((((((((.....))))....(((((((((.(.(((-....)))((((......))))..).))))--.))))).....))))............. ( -37.20, z-score =  -3.22, R)
>droSec1.super_1 13896067 94 - 14215200
GCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU--AGUUGCAUCACCGGCAACCACUAACCAU
((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))--.))))).....))))............. ( -34.80, z-score =  -2.61, R)
>droSim1.chr2R 14996374 94 - 19596830
GCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGUUGCAUCACCGGCAACCACUAACCAU
((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))--.))))).....))))............. ( -34.80, z-score =  -2.67, R)
>consensus
GCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU__CGUUGCAUCACCGGCAACCACUAACCAU
((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))...))))).....))))............. (-27.22 = -27.37 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,339,491 – 16,339,585
Length 94
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 90.35
Shannon entropy 0.18445
G+C content 0.52852
Mean single sequence MFE -36.17
Consensus MFE -28.12
Energy contribution -28.27
Covariance contribution 0.14
Combinations/Pair 1.19
Mean z-score -1.97
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.756473
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16339491 94 - 21146708
AUGUGCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGUUGCAUCACCGGCAACCACUAA
...(((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))--.))))).....)))))........ ( -35.70, z-score =  -1.99, R)
>droAna3.scaffold_13266 16933637 96 + 19884421
AUGUGCGGCAGCUUAAUGUUGAUUAGCUGUCGCAGCCACAGGAUCGGUAUGCACAUUGGCAUUAGCGAAUACCACUGCAACACCGGCAACCGCUAA
....(((((((((.(((....))))))))))))(((.....(.(((((.((((...(((.(((....))).))).))))..))))))....))).. ( -29.20, z-score =  -0.26, R)
>droEre2.scaffold_4845 10485383 93 - 22589142
AUGUGCCGCAGCUUAAUGCUGAUUAGCAGCGGCCGCAGCC-AAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGUUGCACCACCGGCAACCACUAA
...(((((((((.....))))....(((((((((((.(((-....)))((((......))))..))))).--)))))).....)))))........ ( -42.60, z-score =  -3.20, R)
>droYak2.chr2R 8280291 93 + 21139217
AUGUGCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCC-AAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGCUGCACCACCGGCAACCACUAA
...(((((((((.....))))....(((((((((.(.(((-....)))((((......))))..).))))--.))))).....)))))........ ( -38.10, z-score =  -2.47, R)
>droSec1.super_1 13896071 94 - 14215200
AUGUGCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU--AGUUGCAUCACCGGCAACCACUAA
...(((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))--.))))).....)))))........ ( -35.70, z-score =  -1.95, R)
>droSim1.chr2R 14996378 94 - 19596830
AUGUGCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU--CGUUGCAUCACCGGCAACCACUAA
...(((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))--.))))).....)))))........ ( -35.70, z-score =  -1.99, R)
>consensus
AUGUGCCGCAGCUUAAUGCUGAUUAGCAGCAGCCACAGCCAAAUUGGCAUGCACAUUGGCAUUAGCGGCU__CGUUGCAUCACCGGCAACCACUAA
...(((((((((.....))))....(((((((((.(.(((.....)))((((......))))..).))))...))))).....)))))........ (-28.12 = -28.27 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:38:27 2011