Locus 7138

Sequence ID dm3.chr3L
Location 12,487,604 – 12,487,694
Length 90
Max. P 0.809957
window9827 window9828

overview

Window 7

Location 12,487,604 – 12,487,694
Length 90
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 59.30
Shannon entropy 0.71905
G+C content 0.47480
Mean single sequence MFE -19.85
Consensus MFE -6.13
Energy contribution -6.09
Covariance contribution -0.04
Combinations/Pair 1.38
Mean z-score -1.70
Structure conservation index 0.31
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.809957
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12487604 90 + 24543557
UCCCGUCCAGAGAUGCUGGCAUUUCCGCGUAUUUUUUUUUUUUUUCGCCUAACCACACUUUAUUGG--UCUUACACAGGUCCAUUGACCGUG
....(.(((((((((....)))))).(((................)))...............)))--.)...(((.((((....))))))) ( -16.69, z-score =  -1.25, R)
>droYak2.chr3L 12547888 83 + 24197627
UCCCGCCCAGAGAUGCUGGCAUUUCCGC---------UAUUUUUUCGCCUUACUACAUUUCGUCGGGUCUUUACACAGGUCCAUUGACCGUG
.((((....((((((..(((........---------.........)))......))))))..))))......(((.((((....))))))) ( -19.33, z-score =  -1.37, R)
>droEre2.scaffold_4784 12484220 81 + 25762168
UCUCGCCCAGAGAUGCUGGCAUUUCCGC---------UAUUUUUUCGCCUCACUACAUUUCAUUGG--UCUUACACAGGUCCAUUGACCGUG
....(((..((((((..(((........---------.........)))......))))))...))--)....(((.((((....))))))) ( -14.93, z-score =  -0.68, R)
>droWil1.scaffold_180916 1083304 85 - 2700594
UUUUCGUCAGAGUUUGCUCCAUUUUCAUAG------CUAAACGAUUAGCUAUUUAGAGUUUGCCAG-CUGUUUCACCGGUCCAUUGACCGUG
.....(..(.((((.((....(((..((((------((((....))))))))..)))....)).))-)).)..)..(((((....))))).. ( -20.90, z-score =  -2.78, R)
>droMoj3.scaffold_6680 6083479 81 + 24764193
------CCAUAGACAGAGCCACAUCCACAGGUGA---UCGGCUGCUGGCUGUUGGCUUCUUUUUGU--CUAUCUACCGGUCCAUUGACCAUG
------..(((((((((((((((.((((((.(..---..).))).))).)).)))))).....)))--)))).....((((....))))... ( -27.40, z-score =  -2.44, R)
>consensus
UCCCGCCCAGAGAUGCUGGCAUUUCCGC_________UAUUUUUUCGCCUAACUACAUUUUAUUGG__UCUUACACAGGUCCAUUGACCGUG
.........((((((..(((..........................)))......))))))............(((.((((....))))))) ( -6.13 =  -6.09 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,487,604 – 12,487,694
Length 90
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 59.30
Shannon entropy 0.71905
G+C content 0.47480
Mean single sequence MFE -20.64
Consensus MFE -8.04
Energy contribution -7.40
Covariance contribution -0.64
Combinations/Pair 1.36
Mean z-score -0.86
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3L 12487604 90 - 24543557
CACGGUCAAUGGACCUGUGUAAGA--CCAAUAAAGUGUGGUUAGGCGAAAAAAAAAAAAAAUACGCGGAAAUGCCAGCAUCUCUGGACGGGA
.............(((((((..((--(((........)))))..))...................((((.(((....))).)))).))))). ( -18.40, z-score =  -0.18, R)
>droYak2.chr3L 12547888 83 - 24197627
CACGGUCAAUGGACCUGUGUAAAGACCCGACGAAAUGUAGUAAGGCGAAAAAAUA---------GCGGAAAUGCCAGCAUCUCUGGGCGGGA
(((((((....)))).)))......((((.(((.((((......((.........---------))((.....)).)))).)).)..)))). ( -20.20, z-score =  -0.15, R)
>droEre2.scaffold_4784 12484220 81 - 25762168
CACGGUCAAUGGACCUGUGUAAGA--CCAAUGAAAUGUAGUGAGGCGAAAAAAUA---------GCGGAAAUGCCAGCAUCUCUGGGCGAGA
(((((((....)))).)))...(.--((...((.((((......((.........---------))((.....)).)))).))..))).... ( -15.70, z-score =   0.65, R)
>droWil1.scaffold_180916 1083304 85 + 2700594
CACGGUCAAUGGACCGGUGAAACAG-CUGGCAAACUCUAAAUAGCUAAUCGUUUAG------CUAUGAAAAUGGAGCAAACUCUGACGAAAA
....((((..((.(((((......)-)))))...(((((.((((((((....))))------)))).....)))))....)..))))..... ( -22.50, z-score =  -2.85, R)
>droMoj3.scaffold_6680 6083479 81 - 24764193
CAUGGUCAAUGGACCGGUAGAUAG--ACAAAAAGAAGCCAACAGCCAGCAGCCGA---UCACCUGUGGAUGUGGCUCUGUCUAUGG------
..(((((....)))))((((((((--(.........((((.((.(((.(((....---....)))))).)))))))))))))))..------ ( -26.40, z-score =  -1.78, R)
>consensus
CACGGUCAAUGGACCUGUGUAAAA__CCAACAAAAUGUAGUUAGGCGAAAAAAUA_________GCGGAAAUGCCAGCAUCUCUGGGCGAGA
(((((((....)))).)))........................((((........................))))................. ( -8.04 =  -7.40 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:21:12 2011