Locus 14731

Sequence ID	dm3.chrX
Location	15,128,121 – 15,128,225
Length	104
Max. P	0.988933

overview

Window 5

Location	15,128,121 – 15,128,225
Length	104
Sequences	7
Columns	115
Reading direction	forward
Mean pairwise identity	76.66
Shannon entropy	0.46038
G+C content	0.56451
Mean single sequence MFE	-35.93
Consensus MFE	-24.11
Energy contribution	-26.09
Covariance contribution	1.98
Combinations/Pair	1.17
Mean z-score	-2.11
Structure conservation index	0.67
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.34
SVM RNA-class probability	0.988933
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15128121 104 + 22422827
----GGCAUAAUCUUUGUGCCAACGCCAGCCGCCGAC-------GUCGGCGUCAACGUAUCCCCAGGCUGCCAGUUUACAAUUUUAGCAGCCGACACCGAGUGAUGGCAACUUGG
----((((((.....))))))...((((..(((((..-------(((.(((....))).......((((((.((.........)).)))))))))..)).))).))))....... ( -35.90, z-score =  -2.11, R)
>droSim1.chrX 11665773 104 + 17042790
----GGCAUAAUCUUUGUGCCAACGCCAGCCGCCGAC-------GUCGGCGUCAACGUAUCCCCAGGCUGCCAGUUUACAAUUUUAGCAGCCGACACCGAGUGAUGGCAACUUGG
----((((((.....))))))...((((..(((((..-------(((.(((....))).......((((((.((.........)).)))))))))..)).))).))))....... ( -35.90, z-score =  -2.11, R)
>droSec1.super_56 17111 104 + 192059
----GGCAUAAUCUUUGUGCCAACGCCAGCCGCCGAC-------GUCGGCGUCAACGUAUCCCCAGGCUGCCAGUUUACAAUUUUAGCAGCCGACACCGAGUGAUGGCAACUUGG
----((((((.....))))))...((((..(((((..-------(((.(((....))).......((((((.((.........)).)))))))))..)).))).))))....... ( -35.90, z-score =  -2.11, R)
>droYak2.chrX 9328075 104 + 21770863
----GGCAUAAUCUUUGUGCCAACGCCAGCCGCCGAC-------GUCGGCGUCAUCGUAUCCCCAGGCUGCCAGUCUAAAAUUUUAGCAGCCCACAUCGAGUGAAGGCAGCCUGG
----((((((.....)))))).(((...(.(((((..-------..))))).)..)))....((((((((((.(.((((....)))))....(((.....)))..)))))))))) ( -42.80, z-score =  -4.49, R)
>droEre2.scaffold_4690 6859472 111 - 18748788
----GGCAUAAUCUUUGUGCCAACGCCAGCCGCCAGCCGCCGACGUCGGCGUCAACGUAUCCCCAGGCUGCCAGUUUACAAUUUUGGCAGCCGACACCGAGUGAUGGCAAGUUGG
----((((((.....))))))....(((((.((((..(((((..(((.(((....))).......(((((((((.........))))))))))))..)).))).))))..))))) ( -46.80, z-score =  -3.56, R)
>droAna3.scaffold_13117 1348835 107 + 5790199
GAGGGGCGUAAUCUUUGUGCCAACGCCAGUCGCCAGC-------GUUGGCGUCAACUUAUCCCCAGGCUGCCAGUUUACAAUUUUG-CAGCCGGCCGACAGGGCUGGCAAGUUGG
..((((.((((...((((((((((((.........))-------))))))).))).))))))))((((.....)))).((((((..-..(((((((.....))))))))))))). ( -41.10, z-score =  -0.97, R)
>droGri2.scaffold_14853 3371622 94 + 10151454
--------CUCUUUCUCAGUCAUCGCCCACCAUCGUCG--CAUAAUCCCAGGCAACGUGACCC--AGCUGACAGUUUACAAUUUGCACAGUAUUCGACAAAUGCUG---------
--------..........((((..((.......(((.(--(..........)).)))......--.))))))...............(((((((.....)))))))--------- ( -13.14, z-score =   0.58, R)
>consensus
____GGCAUAAUCUUUGUGCCAACGCCAGCCGCCGAC_______GUCGGCGUCAACGUAUCCCCAGGCUGCCAGUUUACAAUUUUAGCAGCCGACACCGAGUGAUGGCAACUUGG
....((((((.....))))))...(((.(.(((((((.......))))))).)............((((((...............)))))).............)))....... (-24.11 = -26.09 +   1.98)

alignment

secondary structure

dotplot

Window 6

Location	15,128,121 – 15,128,225
Length	104
Sequences	7
Columns	115
Reading direction	reverse
Mean pairwise identity	76.66
Shannon entropy	0.46038
G+C content	0.56451
Mean single sequence MFE	-38.98
Consensus MFE	-21.82
Energy contribution	-23.61
Covariance contribution	1.80
Combinations/Pair	1.13
Mean z-score	-1.51
Structure conservation index	0.56
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.60
SVM RNA-class probability	0.758472
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15128121 104 - 22422827
CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGAC-------GUCGGCGGCUGGCGUUGGCACAAAGAUUAUGCC----
...(((((((...((((((((((((((((((...........)))))))).(......)...)))))))).-------)).)))))))(((((...(.....)...)))))---- ( -40.50, z-score =  -1.82, R)
>droSim1.chrX 11665773 104 - 17042790
CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGAC-------GUCGGCGGCUGGCGUUGGCACAAAGAUUAUGCC----
...(((((((...((((((((((((((((((...........)))))))).(......)...)))))))).-------)).)))))))(((((...(.....)...)))))---- ( -40.50, z-score =  -1.82, R)
>droSec1.super_56 17111 104 - 192059
CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGAC-------GUCGGCGGCUGGCGUUGGCACAAAGAUUAUGCC----
...(((((((...((((((((((((((((((...........)))))))).(......)...)))))))).-------)).)))))))(((((...(.....)...)))))---- ( -40.50, z-score =  -1.82, R)
>droYak2.chrX 9328075 104 - 21770863
CCAGGCUGCCUUCACUCGAUGUGGGCUGCUAAAAUUUUAGACUGGCAGCCUGGGGAUACGAUGACGCCGAC-------GUCGGCGGCUGGCGUUGGCACAAAGAUUAUGCC----
(((((((((((((((.....)))))...((((....))))...))))))))))............((((((-------(((((...)))))))))))..............---- ( -43.90, z-score =  -3.04, R)
>droEre2.scaffold_4690 6859472 111 + 18748788
CCAACUUGCCAUCACUCGGUGUCGGCUGCCAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGACGUCGGCGGCUGGCGGCUGGCGUUGGCACAAAGAUUAUGCC----
......(((((....((((((((((((((((...........)))))))).(......)...))))))))(((((((.(....).))))))).))))).............---- ( -47.00, z-score =  -2.09, R)
>droAna3.scaffold_13117 1348835 107 - 5790199
CCAACUUGCCAGCCCUGUCGGCCGGCUG-CAAAAUUGUAAACUGGCAGCCUGGGGAUAAGUUGACGCCAAC-------GCUGGCGACUGGCGUUGGCACAAAGAUUACGCCCCUC
.(((((((((.(((.....))).(((((-(..............))))))...)).)))))))..((((((-------((..(...)..)))))))).................. ( -41.24, z-score =  -1.48, R)
>droGri2.scaffold_14853 3371622 94 - 10151454
---------CAGCAUUUGUCGAAUACUGUGCAAAUUGUAAACUGUCAGCU--GGGUCACGUUGCCUGGGAUUAUG--CGACGAUGGUGGGCGAUGACUGAGAAAGAG--------
---------...((.(..(((..((((((.(...(((((....(((..(.--.(((......)))..))))..))--))).)))))))..)))..).))........-------- ( -19.20, z-score =   1.53, R)
>consensus
CCAAGUUGCCAUCACUCGGUGUCGGCUGCUAAAAUUGUAAACUGGCAGCCUGGGGAUACGUUGACGCCGAC_______GUCGGCGGCUGGCGUUGGCACAAAGAUUAUGCC____
......(((((............((((((((...........)))))))).......(((((..(((((...........)))))...))))))))))................. (-21.82 = -23.61 +   1.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:45:37 2011