Locus 15444

Sequence ID dm3.chrX
Location 19,087,504 – 19,087,624
Length 120
Max. P 0.994759
window21281 window21282 window21283 window21284

overview

Window 1

Location 19,087,504 – 19,087,597
Length 93
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 68.89
Shannon entropy 0.60472
G+C content 0.49519
Mean single sequence MFE -30.36
Consensus MFE -12.04
Energy contribution -14.71
Covariance contribution 2.67
Combinations/Pair 1.29
Mean z-score -2.68
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.73
SVM RNA-class probability 0.994759
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19087504 93 + 22422827
CGAUAGCAGGCUAGCGUAGCCGGAAAUCUGGCGAAUUGUAGCCAGACAUCUGGCUA-GU-CCUUAGUCAAGCCAAUCGCCAGAGCAGGCAAGAGU
.(((.((.(((((((.((((((((..((((((........))))))..))))))))-))-...)))))..))..)))(((......)))...... ( -35.80, z-score =  -3.10, R)
>droEre2.scaffold_4690 9348916 93 + 18748788
CGAUAGCAGGCUAUCGUAGCCGAAAA-CUGGCGAUUUGUAGCCAGACAUUUGGCUA-GUACCGCAGUCAAGCCAAUCGUCAGAGCAGGCUGGAGU
((((((....))))))(((((.....-(((((((((..(((((((....)))))))-.....((......)).)))))))))....))))).... ( -34.10, z-score =  -2.79, R)
>droYak2.chrX 17676674 92 + 21770863
CGAUAGCAGGCUAUCGUUUCCGAAAAUCUGGCGAUUUGUAGCCAGAGAUCUGGCUA-GU--CGUAGUGAAGGCAGUCGCCAGACCAGACAGAAAU
((((((....))))))((((......((((((((((..(((((((....)))))))-((--(........))))))))))))).......)))). ( -36.42, z-score =  -4.43, R)
>droSec1.super_8 1381937 92 + 3762037
CGAUACCAGGCUAGCGUAGUCCGAAAUCUGGCGACUUUUAGCCAGACAUCUGUCUA-GU-CGUU-GUCAGACCAAUCGCCAGAGCAGGCAGGAGU
.....((..(((.((......(((..(((((((((..((((.(((....))).)))-).-.)))-))))))....))).....)).))).))... ( -28.30, z-score =  -1.36, R)
>droSim1.chrX 14750149 92 + 17042790
CGAUACCAGGCUAGAGUAGGCGGAAAUCUGGCUACUUUUAGCCAGACAUCUGUCUA-GU-CGUU-GUCAGGCCAAUCGUCAGAGCAGGCAGGAGU
.....((.(((..((.((((((((..((((((((....))))))))..))))))))-.)-)...-)))..(((..((....))...))).))... ( -38.00, z-score =  -4.13, R)
>droGri2.scaffold_14853 2231539 88 - 10151454
UAAUA-CAAAAUAUCGAAGCGAAAUAUCGAACCAAACAAUGCCAAAUACCCAUCUCUGUCAUAUCGAUAACUUAACAGGGAGCGUAAAA------
.....-.......((((.........))))................(((...(((((((...............)))))))..)))...------ (  -9.56, z-score =  -0.29, R)
>consensus
CGAUAGCAGGCUAGCGUAGCCGAAAAUCUGGCGAAUUGUAGCCAGACAUCUGGCUA_GU_CCUUAGUCAAGCCAAUCGCCAGAGCAGGCAGGAGU
........((((....((((((((..((((((........))))))..)))))))).............))))....(((......)))...... (-12.04 = -14.71 +   2.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,087,504 – 19,087,597
Length 93
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 68.89
Shannon entropy 0.60472
G+C content 0.49519
Mean single sequence MFE -29.17
Consensus MFE -11.72
Energy contribution -11.36
Covariance contribution -0.35
Combinations/Pair 1.62
Mean z-score -2.57
Structure conservation index 0.40
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.55
SVM RNA-class probability 0.992514
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19087504 93 - 22422827
ACUCUUGCCUGCUCUGGCGAUUGGCUUGACUAAGG-AC-UAGCCAGAUGUCUGGCUACAAUUCGCCAGAUUUCCGGCUACGCUAGCCUGCUAUCG
..........(((((((((((((.(((.....)))-..-(((((((....)))))))))).)))))))).....(((((...))))).))..... ( -33.10, z-score =  -2.63, R)
>droEre2.scaffold_4690 9348916 93 - 18748788
ACUCCAGCCUGCUCUGACGAUUGGCUUGACUGCGGUAC-UAGCCAAAUGUCUGGCUACAAAUCGCCAG-UUUUCGGCUACGAUAGCCUGCUAUCG
.....((((......((((.((((((..((....))..-.)))))).))))((((........)))).-.....)))).((((((....)))))) ( -31.60, z-score =  -2.86, R)
>droYak2.chrX 17676674 92 - 21770863
AUUUCUGUCUGGUCUGGCGACUGCCUUCACUACG--AC-UAGCCAGAUCUCUGGCUACAAAUCGCCAGAUUUUCGGAAACGAUAGCCUGCUAUCG
.((((((...((((((((((......((.....)--).-(((((((....)))))))....))))))))))..))))))((((((....)))))) ( -38.10, z-score =  -6.19, R)
>droSec1.super_8 1381937 92 - 3762037
ACUCCUGCCUGCUCUGGCGAUUGGUCUGAC-AACG-AC-UAGACAGAUGUCUGGCUAAAAGUCGCCAGAUUUCGGACUACGCUAGCCUGGUAUCG
.....((((....((((((..((((((((.-....-.(-(....))..(((((((........))))))).))))))))))))))...))))... ( -30.60, z-score =  -2.07, R)
>droSim1.chrX 14750149 92 - 17042790
ACUCCUGCCUGCUCUGACGAUUGGCCUGAC-AACG-AC-UAGACAGAUGUCUGGCUAAAAGUAGCCAGAUUUCCGCCUACUCUAGCCUGGUAUCG
.....((((.(((..((((.(((......)-))))-..-(((.(.((.(((((((((....))))))))).)).).))).)).)))..))))... ( -25.60, z-score =  -1.67, R)
>droGri2.scaffold_14853 2231539 88 + 10151454
------UUUUACGCUCCCUGUUAAGUUAUCGAUAUGACAGAGAUGGGUAUUUGGCAUUGUUUGGUUCGAUAUUUCGCUUCGAUAUUUUG-UAUUA
------...(((.(((.((((((.(((...))).)))))).)).).)))....(((..((((((..(((....)))..)))).))..))-).... ( -16.00, z-score =  -0.01, R)
>consensus
ACUCCUGCCUGCUCUGGCGAUUGGCUUGACUAAGG_AC_UAGACAGAUGUCUGGCUACAAAUCGCCAGAUUUCCGGCUACGAUAGCCUGCUAUCG
.................((((.((((.............(((.(.((.(((((((........))))))).)).).)))....))))....)))) (-11.72 = -11.36 +  -0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,087,522 – 19,087,624
Length 102
Sequences 7
Columns 113
Reading direction forward
Mean pairwise identity 59.12
Shannon entropy 0.78503
G+C content 0.44635
Mean single sequence MFE -29.28
Consensus MFE -4.93
Energy contribution -5.91
Covariance contribution 0.98
Combinations/Pair 1.22
Mean z-score -2.34
Structure conservation index 0.17
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.766777
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19087522 102 + 22422827
-------GCCGGAAAUCUGGCGAAUUGUAGCCAGACAUCUGGCUAGU-CCUUAGUCAAGCCAAUCGCC--AGAGCAGGCAAGAGUUAUCGAUAUCGAAUCUCGGGACAGAAA-
-------((((((..((((((........))))))..))))))..((-(((.......(((..((...--.))...)))..(((...(((....)))..)))))))).....- ( -39.50, z-score =  -4.06, R)
>droAna3.scaffold_12903 159258 111 - 802071
CUUUAAAAUUUGAUAUCUCACAAAGAGAACUAAACUAUUCCAUAAAU-UAAUUAAUAUAUGUACAUAUCAACUAUAAAUACAUAGAAA-GGCGUAGACUGUCAACACUGAUAG
((((.....((((((((((.....))))............((((.((-(....))).))))....))))))((((......)))))))-).......((((((....)))))) ( -14.40, z-score =  -1.15, R)
>droEre2.scaffold_4690 9348934 102 + 18748788
--------GCCGAAAACUGGCGAUUUGUAGCCAGACAUUUGGCUAGUACCGCAGUCAAGCCAAUCGUC--AGAGCAGGCUGGAGUUAUCGUUAUCGAAUCUCGGGACAGACA-
--------((((((..(((((........)))))...))))))..........(((.((((..((...--.))...)))).(((...(((....)))..)))......))).- ( -30.80, z-score =  -1.22, R)
>droYak2.chrX 17676692 101 + 21770863
-------UCCGAAAAUCUGGCGAUUUGUAGCCAGAGAUCUGGCUAGU--CGUAGUGAAGGCAGUCGCC--AGACCAGACAGAAAUUAUCGUUAUCGAAUCUCGAGACAGAUA-
-------........((((((((((..(((((((....)))))))((--(........))))))))))--)))............((((....(((.....)))....))))- ( -34.50, z-score =  -3.38, R)
>droSec1.super_8 1381955 101 + 3762037
-------GUCCGAAAUCUGGCGACUUUUAGCCAGACAUCUGUCUAGU-CGUU-GUCAGACCAAUCGCC--AGAGCAGGCAGGAGUUAUCGUUAUCGAAUCUCGGGACAGAAA-
-------((((....(((((((((..((((.(((....))).)))).-.)))-))))))......(((--......)))..(((...(((....)))..))).)))).....- ( -34.80, z-score =  -2.80, R)
>droSim1.chrX 14750167 101 + 17042790
-------GGCGGAAAUCUGGCUACUUUUAGCCAGACAUCUGUCUAGU-CGUU-GUCAGGCCAAUCGUC--AGAGCAGGCAGGAGUUAUCGUUAUCGAAUCUCGGGACAGAAA-
-------((((((..((((((((....))))))))..))))))....-..((-(((..(((..((...--.))...)))..(((...(((....)))..)))..)))))...- ( -34.90, z-score =  -2.77, R)
>droGri2.scaffold_14853 2231556 98 - 10151454
-------GCGAAAUAUCGAACCAAACAAUGCCAAAUACCCAUCU-------CUGUCAUAUCGAUAACUUAACAGGGAGCGUAAAAAAACGUCAUCGAUUCUCGAUACCUUGU-
-------((((..((((((......................(((-------((((...............)))))))((((......)))).........))))))..))))- ( -16.06, z-score =  -1.02, R)
>consensus
_______GCCGGAAAUCUGGCGAAUUGUAGCCAGACAUCUGGCUAGU_CCUUAGUCAAGCCAAUCGCC__AGAGCAGGCAGGAGUUAUCGUUAUCGAAUCUCGGGACAGAAA_
...............((((((........))))))..........................................................(((.....)))......... ( -4.93 =  -5.91 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,087,522 – 19,087,624
Length 102
Sequences 7
Columns 113
Reading direction reverse
Mean pairwise identity 59.12
Shannon entropy 0.78503
G+C content 0.44635
Mean single sequence MFE -27.64
Consensus MFE -6.93
Energy contribution -6.19
Covariance contribution -0.75
Combinations/Pair 1.93
Mean z-score -1.69
Structure conservation index 0.25
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.667513
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19087522 102 - 22422827
-UUUCUGUCCCGAGAUUCGAUAUCGAUAACUCUUGCCUGCUCU--GGCGAUUGGCUUGACUAAGG-ACUAGCCAGAUGUCUGGCUACAAUUCGCCAGAUUUCCGGC-------
-.....((((.(((..(((....)))...)))(((((......--))))).............))-))..(((.((.(((((((........))))))).)).)))------- ( -34.40, z-score =  -2.65, R)
>droAna3.scaffold_12903 159258 111 + 802071
CUAUCAGUGUUGACAGUCUACGCC-UUUCUAUGUAUUUAUAGUUGAUAUGUACAUAUAUUAAUUA-AUUUAUGGAAUAGUUUAGUUCUCUUUGUGAGAUAUCAAAUUUUAAAG
.........((((....(((.((.-.(((((((......(((((((((((....)))))))))))-...)))))))..)).))).((((.....))))..))))......... ( -18.90, z-score =  -0.56, R)
>droEre2.scaffold_4690 9348934 102 - 18748788
-UGUCUGUCCCGAGAUUCGAUAACGAUAACUCCAGCCUGCUCU--GACGAUUGGCUUGACUGCGGUACUAGCCAAAUGUCUGGCUACAAAUCGCCAGUUUUCGGC--------
-........((((((.(((....)))....((.((((...((.--...))..)))).))(((((((..((((((......))))))...)))).))).)))))).-------- ( -26.50, z-score =  -0.48, R)
>droYak2.chrX 17676692 101 - 21770863
-UAUCUGUCUCGAGAUUCGAUAACGAUAAUUUCUGUCUGGUCU--GGCGACUGCCUUCACUACG--ACUAGCCAGAUCUCUGGCUACAAAUCGCCAGAUUUUCGGA-------
-((((....(((.....)))....))))...((((...(((((--(((((......((.....)--).(((((((....)))))))....))))))))))..))))------- ( -32.50, z-score =  -3.16, R)
>droSec1.super_8 1381955 101 - 3762037
-UUUCUGUCCCGAGAUUCGAUAACGAUAACUCCUGCCUGCUCU--GGCGAUUGGUCUGAC-AACG-ACUAGACAGAUGUCUGGCUAAAAGUCGCCAGAUUUCGGAC-------
-.....((((.(((..(((....)))...)))........(((--(((((((((((.(((-(.(.-........).)))).)))))...)))))))))....))))------- ( -31.60, z-score =  -2.32, R)
>droSim1.chrX 14750167 101 - 17042790
-UUUCUGUCCCGAGAUUCGAUAACGAUAACUCCUGCCUGCUCU--GACGAUUGGCCUGAC-AACG-ACUAGACAGAUGUCUGGCUAAAAGUAGCCAGAUUUCCGCC-------
-..((((((..(((..(((....)))...)))..(((...((.--...))..))).....-....-....)))))).(((((((((....))))))))).......------- ( -27.50, z-score =  -2.42, R)
>droGri2.scaffold_14853 2231556 98 + 10151454
-ACAAGGUAUCGAGAAUCGAUGACGUUUUUUUACGCUCCCUGUUAAGUUAUCGAUAUGACAG-------AGAUGGGUAUUUGGCAUUGUUUGGUUCGAUAUUUCGC-------
-...((((((((((...(((((.((......(((.(((.((((((.(((...))).))))))-------.)).).)))..)).))))).....))))))))))...------- ( -22.10, z-score =  -0.26, R)
>consensus
_UUUCUGUCCCGAGAUUCGAUAACGAUAACUCCUGCCUGCUCU__GGCGAUUGGCUUGACUAAGG_ACUAGACAGAUGUCUGGCUACAAUUCGCCAGAUUUCCGGC_______
..................................(((...((......))..)))...................((.(((((((........))))))).))........... ( -6.93 =  -6.19 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:59:27 2011