Locus 5006

Sequence ID dm3.chr2R
Location 17,070,358 – 17,070,433
Length 75
Max. P 0.992199
window6876 window6877

overview

Window 6

Location 17,070,358 – 17,070,433
Length 75
Sequences 14
Columns 83
Reading direction forward
Mean pairwise identity 79.28
Shannon entropy 0.49031
G+C content 0.61997
Mean single sequence MFE -33.54
Consensus MFE -27.32
Energy contribution -27.91
Covariance contribution 0.59
Combinations/Pair 1.57
Mean z-score -1.68
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.29
SVM RNA-class probability 0.987718
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17070358 75 + 21146708
GAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA--------
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...-------- ( -35.90, z-score =  -1.86, R)
>droSim1.chr2R 15719251 75 + 19596830
GAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA--------
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...-------- ( -35.90, z-score =  -1.86, R)
>droSec1.super_9 396781 75 + 3197100
GAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUG--------
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...-------- ( -35.90, z-score =  -1.87, R)
>droYak2.chr2R 9013178 78 - 21139217
GAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAUUG-----
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))......----- ( -35.90, z-score =  -1.96, R)
>droEre2.scaffold_4845 11212999 75 + 22589142
GAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUA--------
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...-------- ( -35.90, z-score =  -1.86, R)
>dp4.chr3 17721730 78 + 19779522
AAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAGUACC-----
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))......----- ( -35.90, z-score =  -1.76, R)
>droPer1.super_31 862815 78 - 935084
AAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAGUACC-----
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))......----- ( -35.90, z-score =  -1.76, R)
>droAna3.scaffold_13266 12990009 78 - 19884421
AAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAAAUA-----
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))......----- ( -35.90, z-score =  -2.09, R)
>droWil1.scaffold_181096 7895069 83 - 12416693
UAGCAUCGGUGGUUCAGAGGUAGAAUGCUCGCCCGCCAAGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAUACGAGGUUU
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))........... ( -38.10, z-score =  -2.19, R)
>droVir3.scaffold_12875 10888530 75 + 20611582
GAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAA--------
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...-------- ( -35.90, z-score =  -1.91, R)
>droMoj3.scaffold_6496 10426576 75 - 26866924
AAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAA--------
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))...-------- ( -35.90, z-score =  -2.03, R)
>droGri2.scaffold_15245 14334376 61 - 18325388
----------AAGCCGAUUGUAUAUAACCAGUUCGUUUAAAUUAAGG---AUAUACGAGUAUAUAUAAAUACAU---------
----------.......((((((((....((((......))))....---))))))))((((......))))..--------- (  -7.00, z-score =  -0.43, R)
>anoGam1.chr2L 33891052 78 - 48795086
AAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAACCGG-----
..(((((((..((((.......))))((.(((((((...)))))))))(((((.......))))))))))))......----- ( -35.90, z-score =  -1.35, R)
>triCas2.chrUn_3 246029 75 - 565036
-GGGCCCGGUGGCCCAGUGGUAUAAGCGCCACUUACAACGCGGGAGGUCGGGGUUCGAACCCGGAUCAGGGUAACA-------
-(((((....)))))((((((......))))))....((.(....((((.((((....)))).)))).).))....------- ( -29.60, z-score =  -0.52, R)
>consensus
GAGCAUCGGUGGUUCAGUGGUAGAAUGCUCGCCUGCCACGCGGGCGGCCCGGGUUCGAUUCCCGGCCGAUGCAAA________
..(((((....((((.(((((((.........)))))))..))))((((.(((......))).)))))))))........... (-27.32 = -27.91 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,070,358 – 17,070,433
Length 75
Sequences 14
Columns 83
Reading direction reverse
Mean pairwise identity 79.28
Shannon entropy 0.49031
G+C content 0.61997
Mean single sequence MFE -30.16
Consensus MFE -24.16
Energy contribution -25.33
Covariance contribution 1.17
Combinations/Pair 1.35
Mean z-score -1.86
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.53
SVM RNA-class probability 0.992199
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17070358 75 - 21146708
--------UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUC
--------...((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.31, R)
>droSim1.chr2R 15719251 75 - 19596830
--------UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUC
--------...((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.31, R)
>droSec1.super_9 396781 75 - 3197100
--------CAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUC
--------...((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.22, R)
>droYak2.chr2R 9013178 78 + 21139217
-----CAAUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUC
-----......((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.28, R)
>droEre2.scaffold_4845 11212999 75 - 22589142
--------UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUC
--------...((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.31, R)
>dp4.chr3 17721730 78 - 19779522
-----GGUACUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUU
-----......((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -1.59, R)
>droPer1.super_31 862815 78 + 935084
-----GGUACUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUU
-----......((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -1.59, R)
>droAna3.scaffold_13266 12990009 78 + 19884421
-----UAUUUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUU
-----......((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.33, R)
>droWil1.scaffold_181096 7895069 83 + 12416693
AAACCUCGUAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCUUGGCGGGCGAGCAUUCUACCUCUGAACCACCGAUGCUA
...........((((((((((((.......)))))(((((((((...))))))).)).................))))))).. ( -38.30, z-score =  -3.48, R)
>droVir3.scaffold_12875 10888530 75 - 20611582
--------UUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUC
--------...((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.28, R)
>droMoj3.scaffold_6496 10426576 75 + 26866924
--------UUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUU
--------...((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -2.28, R)
>droGri2.scaffold_15245 14334376 61 + 18325388
---------AUGUAUUUAUAUAUACUCGUAUAU---CCUUAAUUUAAACGAACUGGUUAUAUACAAUCGGCUU----------
---------..((((......))))((((.((.---........)).)))).((((((......))))))...---------- (  -6.00, z-score =  -0.02, R)
>anoGam1.chr2L 33891052 78 + 48795086
-----CCGGUUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUU
-----......((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. ( -32.20, z-score =  -1.17, R)
>triCas2.chrUn_3 246029 75 + 565036
-------UGUUACCCUGAUCCGGGUUCGAACCCCGACCUCCCGCGUUGUAAGUGGCGCUUAUACCACUGGGCCACCGGGCCC-
-------.........(((.((((.(((.....)))...)))).)))...(((((........)))))(((((....)))))- ( -23.80, z-score =   0.11, R)
>consensus
________UAUGCAUCGGCCGGGAAUCGAACCCGGGCCGCCCGCGUGGCAGGCGAGCAUUCUACCACUGAACCACCGAUGCUC
...........((((((((((((.......)))))((((((.((...)).)))).)).................))))))).. (-24.16 = -25.33 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:40:07 2011