Locus 13930

Sequence ID dm3.chrX
Location 10,072,459 – 10,072,567
Length 108
Max. P 0.973828
window19162 window19163

overview

Window 2

Location 10,072,459 – 10,072,567
Length 108
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 75.80
Shannon entropy 0.41029
G+C content 0.44833
Mean single sequence MFE -35.64
Consensus MFE -16.51
Energy contribution -14.35
Covariance contribution -2.16
Combinations/Pair 1.64
Mean z-score -2.87
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.90
SVM RNA-class probability 0.973828
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10072459 108 + 22422827
GUGGC-CAGAGUUGGUCACAACCAG-UGACGCUUAAGAGUGAUAAGUGCGGAUUUCGACCGGG------CCACAGCAACUAUGCUAAUUAAUUA---CAUUAGUUGCACGAAACUAUUU
(((((-(.(.(((((((((.....)-))))(((((.......)))))........))))).))------)))).(((((((((.(((....)))---)).)))))))............ ( -33.60, z-score =  -2.92, R)
>droSec1.super_15 783192 108 + 1954846
GUGGC-CAGAGUCGGUCACAACCAG-UGGCGCUUAAGAGUGAUAAGUGCGGAUUUCGACCGGG------CCACAGCAACUAUGCUAAUUAAUUA---CAUUAGUUGCACAGAACUAUUU
(((((-(.(.(((((.(((.....)-))(((((((.......))))))).....)))))).))------)))).(((((((((.(((....)))---)).)))))))............ ( -37.20, z-score =  -3.60, R)
>droYak2.chrX 18648147 108 + 21770863
GUGGC-CAGAGUUGGUCACAACGAG-UGACGCUUAAGAGUGAUAAGUGCGGAUUUUGGCCAGG------CCACAGCAACUAUGCUAAUUAAUUA---CAUUAGUUGCACGAAACUAUUU
.((((-(((((((.(((((.....)-))))(((((.......)))))...)))))))))))..------.....(((((((((.(((....)))---)).)))))))............ ( -32.70, z-score =  -2.45, R)
>droEre2.scaffold_4690 13698604 108 - 18748788
GUGGC-CAGAGUCGGUCACAACCAG-UGACGCUUAAGAGUGAUAAGUGCGGAUUUAGACCAGG------CCAGCGCAACUAUGCUAAUUAAUUA---CAUUAGUUGCACGGAACUAUUU
.((((-(.(.(((.(((((.....)-))))(((((.......))))).........)))).))------)))(.(((((((((.(((....)))---)).))))))).).......... ( -30.10, z-score =  -1.59, R)
>droAna3.scaffold_13047 881112 119 + 1816235
GUGGUGCAAACUUCGGGCCAAGGAGACUGCUUUUGAGCAAGGAGACUGCUCUUUCGGGGGGAGAGCUCCCCGAAAGAGUUGCGCAAAUUAAUUAGUUUAUUAAAUUUGAGAAACUAUUU
...(((((..((((..((..(((((....)))))..))..))))...((((((((((((((....)))))))))))))))))))........((((((.(((....))).))))))... ( -44.60, z-score =  -3.78, R)
>consensus
GUGGC_CAGAGUUGGUCACAACCAG_UGACGCUUAAGAGUGAUAAGUGCGGAUUUCGACCGGG______CCACAGCAACUAUGCUAAUUAAUUA___CAUUAGUUGCACGAAACUAUUU
((((.......((((((....((...((.((((....)))).)).....)).....)))))).......)))).(((((((...................)))))))............ (-16.51 = -14.35 +  -2.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 10,072,459 – 10,072,567
Length 108
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 75.80
Shannon entropy 0.41029
G+C content 0.44833
Mean single sequence MFE -30.78
Consensus MFE -11.18
Energy contribution -12.86
Covariance contribution 1.68
Combinations/Pair 1.33
Mean z-score -2.49
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.611837
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10072459 108 - 22422827
AAAUAGUUUCGUGCAACUAAUG---UAAUUAAUUAGCAUAGUUGCUGUGG------CCCGGUCGAAAUCCGCACUUAUCACUCUUAAGCGUCA-CUGGUUGUGACCAACUCUG-GCCAC
............(((((((.((---(.........)))))))))).((((------((.(((((.((((.((.((((.......)))).))..-..)))).)))))......)-))))) ( -28.60, z-score =  -1.74, R)
>droSec1.super_15 783192 108 - 1954846
AAAUAGUUCUGUGCAACUAAUG---UAAUUAAUUAGCAUAGUUGCUGUGG------CCCGGUCGAAAUCCGCACUUAUCACUCUUAAGCGCCA-CUGGUUGUGACCGACUCUG-GCCAC
............(((((((.((---(.........)))))))))).((((------((((((((.((((.((.((((.......)))).))..-..)))).)))))).....)-))))) ( -33.30, z-score =  -2.84, R)
>droYak2.chrX 18648147 108 - 21770863
AAAUAGUUUCGUGCAACUAAUG---UAAUUAAUUAGCAUAGUUGCUGUGG------CCUGGCCAAAAUCCGCACUUAUCACUCUUAAGCGUCA-CUCGUUGUGACCAACUCUG-GCCAC
.....((..((.(((((((.((---(.........))))))))))))..)------).((((((.........((((.......)))).((((-(.....)))))......))-)))). ( -28.00, z-score =  -2.14, R)
>droEre2.scaffold_4690 13698604 108 + 18748788
AAAUAGUUCCGUGCAACUAAUG---UAAUUAAUUAGCAUAGUUGCGCUGG------CCUGGUCUAAAUCCGCACUUAUCACUCUUAAGCGUCA-CUGGUUGUGACCGACUCUG-GCCAC
..........(((((((((.((---(.........))))))))))))(((------((.((((..........((((.......)))).((((-(.....))))).))))..)-)))). ( -33.90, z-score =  -3.35, R)
>droAna3.scaffold_13047 881112 119 - 1816235
AAAUAGUUUCUCAAAUUUAAUAAACUAAUUAAUUUGCGCAACUCUUUCGGGGAGCUCUCCCCCCGAAAGAGCAGUCUCCUUGCUCAAAAGCAGUCUCCUUGGCCCGAAGUUUGCACCAC
.....(((.(.((((((.(((......))))))))).).)))((((((((((........))))))))))((((.((.(.((((....))))(((.....)))..).)).))))..... ( -30.10, z-score =  -2.38, R)
>consensus
AAAUAGUUUCGUGCAACUAAUG___UAAUUAAUUAGCAUAGUUGCUGUGG______CCCGGUCGAAAUCCGCACUUAUCACUCUUAAGCGUCA_CUGGUUGUGACCAACUCUG_GCCAC
............(((((((...................))))))).((((........((((((.((((.((.((((.......)))).)).....)))).))))))........)))) (-11.18 = -12.86 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:30:27 2011