Locus 13922

Sequence ID dm3.chrX
Location 10,011,370 – 10,011,555
Length 185
Max. P 0.994792
window19150 window19151

overview

Window 0

Location 10,011,370 – 10,011,487
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.06
Shannon entropy 0.29656
G+C content 0.47664
Mean single sequence MFE -23.97
Consensus MFE -24.21
Energy contribution -23.89
Covariance contribution -0.32
Combinations/Pair 1.08
Mean z-score -1.08
Structure conservation index 1.01
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.34
SVM RNA-class probability 0.928785
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10011370 117 + 22422827
GGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGAC---UCAGUCUUGGCUUUUAUUCCCCUCAUUCCCCUUUUUACCACCCAAUGCCACCAUUUGUUUUGUUGGCCAU
(((((((..(((((.((((........))))...)))...(((((..---.))))).((((...................................))))......))...))))))).. ( -23.55, z-score =  -0.88, R)
>droSim1.chrX 7951388 114 + 17042790
GGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGAC---UCAGUCUUGGCUUUUAUCCCCUCUA--CCCCCUUUUACC-CCUCUUGCCACCUUUUGUUUUGUUGGCCAU
(((((((..((.(.((((((........(((...)))(..(((((..---.)))))..)................--............-...)))))).).....))...))))))).. ( -24.30, z-score =  -1.78, R)
>droSec1.super_15 725798 114 + 1954846
GGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGAC---UCAGUCUUGGCUUUCAUCCCCCUUA---UCCCCUUUUACCCCUCUUGCCACCUUUUGUUUUGUUGGCCAU
(((((((..((.(.((((((........(((...)))(..(((((..---.)))))..)................---...............)))))).).....))...))))))).. ( -24.30, z-score =  -1.62, R)
>droYak2.chrX 18593670 108 + 21770863
GGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGACUCAGUAGUCUUGGCUUUUAUCCCC------------UUUUACCCCCCUUGCCCCCUUUUGUUUUGUUGGCCAU
(((((((..((.(.((((((........(((...)))(..(((((......)))))..)............------------..........)))))).).....))...))))))).. ( -23.10, z-score =  -0.83, R)
>droEre2.scaffold_4690 13645310 94 - 18748788
GGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGAC---GCGGUCUUGGCUUUCAUCCCC------------UU-----------GCCCCCUUUUGUUGUGUUGGCCAU
(((((((..((((((...(((((.....(((...)))..)))))..)---)))))...(((..........------------..-----------)))............))))))).. ( -24.60, z-score =  -0.29, R)
>consensus
GGCUAAUUUGCUGCGGCAAGUUAUUCAUUGCACUGCACUUGACUGAC___UCAGUCUUGGCUUUUAUCCCC___A____CC__UUUAAC_CCCCUUGCCACCUUUUGUUUUGUUGGCCAU
(((((((..(((((.((((........))))...)))...(((((......)))))..(((...................................))).......))...))))))).. (-24.21 = -23.89 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,011,447 – 10,011,555
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.69
Shannon entropy 0.31706
G+C content 0.46405
Mean single sequence MFE -40.74
Consensus MFE -34.18
Energy contribution -35.34
Covariance contribution 1.16
Combinations/Pair 1.18
Mean z-score -2.66
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.73
SVM RNA-class probability 0.994792
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10011447 108 - 22422827
------------CCGCUUUUUCUUUAUUGUUUUUGUUCUUUUCUGUUGCUGUCUCAUGUGGCAGAGAGACGUGACAGGAAAUGGCCAACAAAACAAAUGGUGGCAUUGGGUGGUAAAAAG
------------((((((..(((...(((((((((..(((((((((..(.(((((..........))))))..)))))))).)..))..))))))).....)).)..))))))....... ( -29.90, z-score =  -1.29, R)
>droSim1.chrX 7951463 119 - 17042790
CUGCUUCGGCUGCCGCUUUUUCUUUAUUGUUUUUGUUCUUUUCUGUUGCUGCCUCAUGUGGCGCAGAGACGUGACAGGAAAUGGCCAACAAAACAAAAGGUGGCA-AGAGGGGUAAAAGG
.((((((...(((((((((((.(((..((((...((..((((((((..(.(.(((.((.....))))).))..))))))))..)).))))))).)))))))))))-...))))))..... ( -39.00, z-score =  -1.45, R)
>droSec1.super_15 725873 119 - 1954846
CUGCUUCGGCUGCCGCUUUUUCUUUAUUGUUUUUGUUCUUUUCUGUUGCUUCCUCAUGUGGCGCAGAGACGUGACAGGAAAUGGCCAACAAAACAAAAGGUGGCA-AGAGGGGUAAAAGG
.((((((...(((((((((((.(((..((((...((..((((((((..(...(((.((.....)))))..)..))))))))..)).))))))).)))))))))))-...))))))..... ( -38.50, z-score =  -1.65, R)
>droYak2.chrX 18593739 117 - 21770863
CUGCUUUAGUUGCCCCCUUUUCUUGAUUGUUUUUGUUCUUUUCUGUUGCUGUCUCAUGUGGC--AGAGACGUGACAGGAAAUGGCCAACAAAACAAAAGGGGGCAAGGGGGGUAAAAGG-
.((((((..((((((((((((.((..(((((...((..((((((((..(.(((((.......--.))))))..))))))))..)).))))))).))))))))))))..)))))).....- ( -48.80, z-score =  -4.40, R)
>droEre2.scaffold_4690 13645374 108 + 18748788
CUGCCUCGCUUGCCCCUCUUUCUUGAUUGUUUUUGCUCUUUUCUGUUGCUGUCUCAUGUGGC--AGAGACGUGACAGGAAAUGGCCAACACAACAAAAGGGGGCAAGGGG----------
....(((.((((((((.((((..((.((((.((.(((.((((((((..(.(((((.......--.))))))..)))))))).))).)).)))))))))))))))))))))---------- ( -47.50, z-score =  -4.51, R)
>consensus
CUGCUUCGGCUGCCGCUUUUUCUUUAUUGUUUUUGUUCUUUUCUGUUGCUGUCUCAUGUGGC__AGAGACGUGACAGGAAAUGGCCAACAAAACAAAAGGUGGCA_AGGGGGGUAAAAGG
...((((...(((((((((((.(((..((((...((..((((((((..(.(((((..........))))))..))))))))..)).))))))).)))))))))))..))))......... (-34.18 = -35.34 +   1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:30:18 2011