Locus 14376

Sequence ID dm3.chrX
Location 12,956,085 – 12,956,190
Length 105
Max. P 0.999407
window19791 window19792

overview

Window 1

Location 12,956,085 – 12,956,190
Length 105
Sequences 11
Columns 117
Reading direction forward
Mean pairwise identity 70.86
Shannon entropy 0.56731
G+C content 0.46641
Mean single sequence MFE -32.91
Consensus MFE -22.24
Energy contribution -21.32
Covariance contribution -0.93
Combinations/Pair 1.38
Mean z-score -2.65
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.86
SVM RNA-class probability 0.999407
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12956085 105 + 22422827
UCGCUGCAUGUGAGAGAA--------UUCCGUGGCUGGCAUCGCUCGCUGUAAAUUGUAAUCAUCAAAGCGUU--UUCU--CAGAGCCGCUUGGUGUUACUUCUUACAGUGAGUGUG
..((((((((.(((....--------)))))).)).)))..((((((((((((...((((.((((((.(((((--(...--..))).)))))))))))))...)))))))))))).. ( -36.40, z-score =  -2.66, R)
>droSec1.super_21 701213 105 + 1102487
UCGCUGCAUGUGAGAGAA--------UUCCGUGGCUGGCAUCGCUCGCUGUAAAUUGUAAUCAUCAAAGCGUU--UUCU--CAGAGCCGCUUGGUGUUACUUCUUACAGUGAGUGUG
..((((((((.(((....--------)))))).)).)))..((((((((((((...((((.((((((.(((((--(...--..))).)))))))))))))...)))))))))))).. ( -36.40, z-score =  -2.66, R)
>droYak2.chrX 7229765 105 + 21770863
UCGCUGCAUGUGAGAGAA--------UUCCGUGGCUGGCAUCGCUCGCUGUAAAUUGUAAUCAUCAAAGCGUU--UUCU--CAGAGCCGCUUGGUGUUACUUCUUACAGUGAGUGUG
..((((((((.(((....--------)))))).)).)))..((((((((((((...((((.((((((.(((((--(...--..))).)))))))))))))...)))))))))))).. ( -36.40, z-score =  -2.66, R)
>droEre2.scaffold_4690 4833925 105 - 18748788
UCGCUGCAUGUGAGAGAA--------UUCCGUGGCUGGCAUCGCCCGCUGUAAAUUGUAAUCAUCAAAGCGUU--UUCU--CAGAGCCGCUUGGUGUUACUUCUUACAGUGAGUGUG
..((((((((.(((....--------)))))).)).)))..(((.((((((((...((((.((((((.(((((--(...--..))).)))))))))))))...)))))))).))).. ( -31.60, z-score =  -1.25, R)
>droAna3.scaffold_13117 3891779 107 + 5790199
UCGCUGCAUGUGAGAAAA--------UUCCGUGGCUGGCAUCGUUCACUGUAAAUUGUAACCAUCAAAGCGUU--UUUUAUCAGAGCCGCUUGGUGUUACUUCUUACAGUGAGUGAG
..((((((((.(((....--------)))))).)).))).(((((((((((((...(((((.(((((.(((.(--((......))).)))))))))))))...))))))))))))). ( -34.20, z-score =  -2.78, R)
>dp4.chrXL_group3a 1299084 115 - 2690836
UCUCAGCAUGUGAGAGAGCGGCUCCUUUCCCUGGACCCCAUCGCUCGCUGUAAAUUGUAAUGGCCAAAGCUUU--UUUGUUGGUAGCAGCUUGGUGUUACUUCUUACAGUGAGUGUG
(((((.....)))))..(.((.(((.......))).)))..((((((((((((...((((((.((((.(((.(--(........)).)))))))))))))...)))))))))))).. ( -37.30, z-score =  -1.84, R)
>droPer1.super_52 413302 115 + 549863
UCUCAGCAUGUGAGAGAGCGGCUCCUUUCCCUGGACCCCAUCGCUCGCUGUAAAUUGUAAUGGCCAAAGCUUU--UUUGUUGGUAGCAGCUUGGUGUUACUUCUUACAGUGAGUGUG
(((((.....)))))..(.((.(((.......))).)))..((((((((((((...((((((.((((.(((.(--(........)).)))))))))))))...)))))))))))).. ( -37.30, z-score =  -1.84, R)
>droWil1.scaffold_181096 5725093 94 - 12416693
-----------------------ACAUUAAACGGCCCAAUACGCUCGCUGUAAAUUGUAGCAAUCAAAGCGUUGCCUUUUGCCUCACAGCUUGGUGUUACUUCUUACAGUGAGUGUG
-----------------------................((((((((((((((...((((((....((((((.((.....))...)).))))..))))))...)))))))))))))) ( -30.80, z-score =  -3.28, R)
>droVir3.scaffold_12928 3437481 83 - 7717345
--------------------------UGAAAUGA-CGUCA-CGCCCGCUGUAAAAUGUAAUCAUCAGAGCGUC--C-UC---UCAACCGCUUGGUGUUACUUCUUACAGUGAGUGCG
--------------------------........-.....-((((((((((((...((((.(((((.((((..--.-..---.....)))))))))))))...)))))))).).))) ( -25.20, z-score =  -2.87, R)
>droMoj3.scaffold_6328 350108 83 + 4453435
---------------------------GAAAUGAACGUUG-CGACCGCUGUAAAUUGUAAUCAUCAAAGCGUC--U-GC---UAAAUCGCUUGGUGUUACUUCUUACAGUGAGCGCG
---------------------------............(-((..((((((((...((((.((((((.(((..--.-..---.....)))))))))))))...))))))))..))). ( -28.10, z-score =  -3.51, R)
>droGri2.scaffold_14853 9156922 84 - 10151454
--------------------------UUGAAUGA-CGUCA-CGCCCGCUGUAAUAUGUAAUCAUCAAAGCGUG--UAUU---UUACUCGCUUGGUGUUACUUCUUACAGUGAGUGCG
--------------------------........-.....-((((((((((((...((((.((((((.(((.(--((..---.))).)))))))))))))...)))))))).).))) ( -28.30, z-score =  -3.75, R)
>consensus
UCGCUGCAUGUGAGAGAA________UUCCGUGGCCGGCAUCGCUCGCUGUAAAUUGUAAUCAUCAAAGCGUU__UUUU__CAGAGCCGCUUGGUGUUACUUCUUACAGUGAGUGUG
.........................................(((.((((((((...(((((.(((((.(((................)))))))))))))...)))))))).))).. (-22.24 = -21.32 +  -0.93)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 12,956,085 – 12,956,190
Length 105
Sequences 11
Columns 117
Reading direction reverse
Mean pairwise identity 70.86
Shannon entropy 0.56731
G+C content 0.46641
Mean single sequence MFE -25.05
Consensus MFE -15.25
Energy contribution -15.30
Covariance contribution 0.05
Combinations/Pair 1.10
Mean z-score -1.09
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.19
SVM RNA-class probability 0.906252
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12956085 105 - 22422827
CACACUCACUGUAAGAAGUAACACCAAGCGGCUCUG--AGAA--AACGCUUUGAUGAUUACAAUUUACAGCGAGCGAUGCCAGCCACGGAA--------UUCUCUCACAUGCAGCGA
..(.(((.(((((((..(((((((.(((((......--....--..))))).).)).))))..))))))).))).).(((..((....((.--------.....))....)).))). ( -23.80, z-score =  -0.55, R)
>droSec1.super_21 701213 105 - 1102487
CACACUCACUGUAAGAAGUAACACCAAGCGGCUCUG--AGAA--AACGCUUUGAUGAUUACAAUUUACAGCGAGCGAUGCCAGCCACGGAA--------UUCUCUCACAUGCAGCGA
..(.(((.(((((((..(((((((.(((((......--....--..))))).).)).))))..))))))).))).).(((..((....((.--------.....))....)).))). ( -23.80, z-score =  -0.55, R)
>droYak2.chrX 7229765 105 - 21770863
CACACUCACUGUAAGAAGUAACACCAAGCGGCUCUG--AGAA--AACGCUUUGAUGAUUACAAUUUACAGCGAGCGAUGCCAGCCACGGAA--------UUCUCUCACAUGCAGCGA
..(.(((.(((((((..(((((((.(((((......--....--..))))).).)).))))..))))))).))).).(((..((....((.--------.....))....)).))). ( -23.80, z-score =  -0.55, R)
>droEre2.scaffold_4690 4833925 105 + 18748788
CACACUCACUGUAAGAAGUAACACCAAGCGGCUCUG--AGAA--AACGCUUUGAUGAUUACAAUUUACAGCGGGCGAUGCCAGCCACGGAA--------UUCUCUCACAUGCAGCGA
..(.(((.(((((((..(((((((.(((((......--....--..))))).).)).))))..))))))).))).).(((..((....((.--------.....))....)).))). ( -22.90, z-score =   0.08, R)
>droAna3.scaffold_13117 3891779 107 - 5790199
CUCACUCACUGUAAGAAGUAACACCAAGCGGCUCUGAUAAAA--AACGCUUUGAUGGUUACAAUUUACAGUGAACGAUGCCAGCCACGGAA--------UUUUCUCACAUGCAGCGA
.....((((((((((..(((((.(.(((((............--..))))).)...)))))..)))))))))).((.(((.......(((.--------...))).....))).)). ( -25.74, z-score =  -1.35, R)
>dp4.chrXL_group3a 1299084 115 + 2690836
CACACUCACUGUAAGAAGUAACACCAAGCUGCUACCAACAAA--AAAGCUUUGGCCAUUACAAUUUACAGCGAGCGAUGGGGUCCAGGGAAAGGAGCCGCUCUCUCACAUGCUGAGA
(((.(((.(((((((..((((..(((((((............--..))).))))...))))..))))))).))).).))((.(((.......))).))....(((((.....))))) ( -30.84, z-score =  -0.94, R)
>droPer1.super_52 413302 115 - 549863
CACACUCACUGUAAGAAGUAACACCAAGCUGCUACCAACAAA--AAAGCUUUGGCCAUUACAAUUUACAGCGAGCGAUGGGGUCCAGGGAAAGGAGCCGCUCUCUCACAUGCUGAGA
(((.(((.(((((((..((((..(((((((............--..))).))))...))))..))))))).))).).))((.(((.......))).))....(((((.....))))) ( -30.84, z-score =  -0.94, R)
>droWil1.scaffold_181096 5725093 94 + 12416693
CACACUCACUGUAAGAAGUAACACCAAGCUGUGAGGCAAAAGGCAACGCUUUGAUUGCUACAAUUUACAGCGAGCGUAUUGGGCCGUUUAAUGU-----------------------
.((.(((.(((((((..((..(((......))).((((((((((...)))))..)))))))..))))))).))).)).................----------------------- ( -21.00, z-score =   0.50, R)
>droVir3.scaffold_12928 3437481 83 + 7717345
CGCACUCACUGUAAGAAGUAACACCAAGCGGUUGA---GA-G--GACGCUCUGAUGAUUACAUUUUACAGCGGGCG-UGACG-UCAUUUCA--------------------------
(((.(((.((((((((.((((((.((((((..(..---..-)--..)))).)).)).)))).)))))))).))).)-))...-........-------------------------- ( -26.90, z-score =  -2.68, R)
>droMoj3.scaffold_6328 350108 83 - 4453435
CGCGCUCACUGUAAGAAGUAACACCAAGCGAUUUA---GC-A--GACGCUUUGAUGAUUACAAUUUACAGCGGUCG-CAACGUUCAUUUC---------------------------
.(((..(.(((((((..(((((((.(((((.((..---..-.--))))))).).)).))))..))))))).)..))-)............--------------------------- ( -21.60, z-score =  -1.88, R)
>droGri2.scaffold_14853 9156922 84 + 10151454
CGCACUCACUGUAAGAAGUAACACCAAGCGAGUAA---AAUA--CACGCUUUGAUGAUUACAUAUUACAGCGGGCG-UGACG-UCAUUCAA--------------------------
(((.(((.((((((...(((((((.(((((.(((.---..))--).))))).).)).))))...)))))).))).)-))...-........-------------------------- ( -24.30, z-score =  -3.17, R)
>consensus
CACACUCACUGUAAGAAGUAACACCAAGCGGCUCUG__AAAA__AACGCUUUGAUGAUUACAAUUUACAGCGAGCGAUGCCGGCCACGGAA________UUCUCUCACAUGCAGCGA
..(.(((.(((((((..((((..(.(((((................))))).)....))))..))))))).))).)......................................... (-15.25 = -15.30 +   0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:39:01 2011