Locus 10325

Sequence ID dm3.chr3R
Location 13,063,194 – 13,063,261
Length 67
Max. P 0.939509
window14195 window14196

overview

Window 5

Location 13,063,194 – 13,063,261
Length 67
Sequences 12
Columns 67
Reading direction forward
Mean pairwise identity 98.71
Shannon entropy 0.03087
G+C content 0.28752
Mean single sequence MFE -11.60
Consensus MFE -11.60
Energy contribution -11.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.22
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.77
SVM RNA-class probability 0.812165
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13063194 67 + 27905053
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>droSim1.chr3R 19106201 67 - 27517382
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>droSec1.super_12 1030150 67 - 2123299
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>droYak2.chr3R 17148725 67 + 28832112
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>droEre2.scaffold_4770 9182040 67 - 17746568
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>droAna3.scaffold_13340 10282577 67 + 23697760
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>dp4.chr2 21434141 67 - 30794189
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUC
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.13, R)
>droPer1.super_0 8655131 67 - 11822988
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUG
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.13, R)
>droWil1.scaffold_181089 1665959 67 + 12369635
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>droVir3.scaffold_13047 14161488 65 + 19223366
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUC--
...((((((((((..........))))))))))...(((((((((..........))))))))).-- ( -11.60, z-score =  -1.43, R)
>droMoj3.scaffold_6540 17577775 65 + 34148556
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUC--
...((((((((((..........))))))))))...(((((((((..........))))))))).-- ( -11.60, z-score =  -1.43, R)
>droGri2.scaffold_14830 476471 67 - 6267026
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... ( -11.60, z-score =  -1.18, R)
>consensus
CACGUUAUGUCUGAUGAUGUGGGUAGACAUAAUAUAAAAAUUUAUGAAGCGUUUAAUAAGUUUUCUU
...((((((((((..........))))))))))...(((((((((..........)))))))))... (-11.60 = -11.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 13,063,194 – 13,063,261
Length 67
Sequences 12
Columns 67
Reading direction reverse
Mean pairwise identity 98.71
Shannon entropy 0.03087
G+C content 0.28752
Mean single sequence MFE -6.30
Consensus MFE -6.30
Energy contribution -6.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.46
SVM RNA-class probability 0.939509
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13063194 67 - 27905053
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>droSim1.chr3R 19106201 67 + 27517382
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>droSec1.super_12 1030150 67 + 2123299
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>droYak2.chr3R 17148725 67 - 28832112
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>droEre2.scaffold_4770 9182040 67 + 17746568
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>droAna3.scaffold_13340 10282577 67 - 23697760
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>dp4.chr2 21434141 67 + 30794189
GAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.32, R)
>droPer1.super_0 8655131 67 + 11822988
CAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>droWil1.scaffold_181089 1665959 67 - 12369635
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>droVir3.scaffold_13047 14161488 65 - 19223366
--GAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
--.............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.96, R)
>droMoj3.scaffold_6540 17577775 65 - 34148556
--GAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
--.............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.96, R)
>droGri2.scaffold_14830 476471 67 + 6267026
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) (  -6.30, z-score =  -1.65, R)
>consensus
AAGAAAACUUAUUAAACGCUUCAUAAAUUUUUAUAUUAUGUCUACCCACAUCAUCAGACAUAACGUG
...............................((..((((((((............))))))))..)) ( -6.30 =  -6.30 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:21:47 2011