Locus 9504

Sequence ID dm3.chr3R
Location 7,082,664 – 7,082,757
Length 93
Max. P 0.878458
window13034 window13035

overview

Window 4

Location 7,082,664 – 7,082,757
Length 93
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 77.64
Shannon entropy 0.40563
G+C content 0.43737
Mean single sequence MFE -17.68
Consensus MFE -15.90
Energy contribution -15.52
Covariance contribution -0.38
Combinations/Pair 1.38
Mean z-score -1.00
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.878458
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7082664 93 + 27905053
CCGCUGUUUUUUUUUGUACUUUUCCGUUUCCCCGAAUCCCGGAGCCGAGCACUUUUAUUAUUUAAAUUGCUGUUAACCCU--UGUUUGGCCCAGG-----
...(((................((((.(((...)))...))))((((((((.............................--)))))))).))).----- ( -13.65, z-score =   0.16, R)
>droSim1.chr3R 13235460 93 - 27517382
CCGCUGUUUUUUUUUGUACUUUUCCGUUUCCCCGAAUCCCGGAGCCGAGCACUUUUAUUAUUUAAAUUGCUGUUAACCCU--UGUUUGGCCCGGG-----
.....................................(((((.((((((((.............................--)))))))))))))----- ( -19.05, z-score =  -1.27, R)
>droSec1.super_0 6248553 91 - 21120651
CCGCUGUUUUUU--UGUACUUUUCCGUUUCCCCGAAUCCCGGAGCCGAGCACUUUUAUUAUUUAAGUUGCUGUUAACCCU--UGUUUGGCCCGGG-----
............--.......................(((((.((((((((...(((.....)))((((....))))...--)))))))))))))----- ( -20.00, z-score =  -1.41, R)
>droEre2.scaffold_4770 3208930 89 - 17746568
---CCGCUUUUUU-UGUACUUUUCCGUUUCCCCGAAUCCCGGAGCCGAGCACUUUUAUUAUUUAAAUUGCUUUUAACCCU--UGUUUGGCCCGGG-----
---..........-.......................(((((.((((((((.............................--)))))))))))))----- ( -19.05, z-score =  -1.73, R)
>droAna3.scaffold_13340 12948118 92 - 23697760
---CUGAAUUUUU---UUCCGUUUCGCUUCCCCGAAUCCCAGAGCCGAGCACUUUUAUUAUUUAAAUUGCUGUUAACCCU--UGUUUGGCCUGGGUAGGU
---..........---..((..((((......)))).(((((.((((((((.............................--)))))))))))))..)). ( -20.75, z-score =  -1.21, R)
>droGri2.scaffold_14906 14093693 80 - 14172833
---------------AUGCAGCUUCUUUUUUUUUAUUUUUGUUGCCACGCAGUUUUAUUAUUUAAAUUGCCACUAACCCUCGUGUUUGGCCUGGG-----
---------------..(((((..................)))))...(((((((........)))))))......(((..((.....))..)))----- ( -13.57, z-score =  -0.56, R)
>consensus
___CUGUUUUUUU_UGUACUUUUCCGUUUCCCCGAAUCCCGGAGCCGAGCACUUUUAUUAUUUAAAUUGCUGUUAACCCU__UGUUUGGCCCGGG_____
.....................................(((((.((((((((......(((.............)))......)))))))))))))..... (-15.90 = -15.52 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,082,664 – 7,082,757
Length 93
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 77.64
Shannon entropy 0.40563
G+C content 0.43737
Mean single sequence MFE -19.73
Consensus MFE -15.27
Energy contribution -16.22
Covariance contribution 0.95
Combinations/Pair 1.14
Mean z-score -0.92
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.28
SVM RNA-class probability 0.626050
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7082664 93 - 27905053
-----CCUGGGCCAAACA--AGGGUUAACAGCAAUUUAAAUAAUAAAAGUGCUCGGCUCCGGGAUUCGGGGAAACGGAAAAGUACAAAAAAAAACAGCGG
-----((((((((.(((.--...)))...((((.(((........))).)))).))).))))).((((......))))...................... ( -19.50, z-score =  -0.84, R)
>droSim1.chr3R 13235460 93 + 27517382
-----CCCGGGCCAAACA--AGGGUUAACAGCAAUUUAAAUAAUAAAAGUGCUCGGCUCCGGGAUUCGGGGAAACGGAAAAGUACAAAAAAAAACAGCGG
-----((((((((.(((.--...)))...((((.(((........))).)))).))).))))).((((......))))...................... ( -21.70, z-score =  -1.27, R)
>droSec1.super_0 6248553 91 + 21120651
-----CCCGGGCCAAACA--AGGGUUAACAGCAACUUAAAUAAUAAAAGUGCUCGGCUCCGGGAUUCGGGGAAACGGAAAAGUACA--AAAAAACAGCGG
-----((((((((.(((.--...)))...((((.(((.........))))))).))).))))).((((......))))........--............ ( -22.20, z-score =  -1.39, R)
>droEre2.scaffold_4770 3208930 89 + 17746568
-----CCCGGGCCAAACA--AGGGUUAAAAGCAAUUUAAAUAAUAAAAGUGCUCGGCUCCGGGAUUCGGGGAAACGGAAAAGUACA-AAAAAAGCGG---
-----((((((((.(((.--...)))...((((.(((........))).)))).))).))))).((((......))))........-..........--- ( -21.70, z-score =  -1.32, R)
>droAna3.scaffold_13340 12948118 92 + 23697760
ACCUACCCAGGCCAAACA--AGGGUUAACAGCAAUUUAAAUAAUAAAAGUGCUCGGCUCUGGGAUUCGGGGAAGCGAAACGGAA---AAAAAUUCAG---
.((..((((((((.(((.--...)))...((((.(((........))).)))).))).))))).((((......))))..))..---..........--- ( -22.00, z-score =  -1.33, R)
>droGri2.scaffold_14906 14093693 80 + 14172833
-----CCCAGGCCAAACACGAGGGUUAGUGGCAAUUUAAAUAAUAAAACUGCGUGGCAACAAAAAUAAAAAAAAAGAAGCUGCAU---------------
-----.....((((..(((........)))(((.(((........))).))).))))............................--------------- ( -11.30, z-score =   0.62, R)
>consensus
_____CCCGGGCCAAACA__AGGGUUAACAGCAAUUUAAAUAAUAAAAGUGCUCGGCUCCGGGAUUCGGGGAAACGGAAAAGUACA_AAAAAAACAG___
.....((((((((.(((......)))....(((.(((........))).)))..))).))))).((((......))))...................... (-15.27 = -16.22 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:05:41 2011