Locus 14789

Sequence ID dm3.chrX
Location 15,442,957 – 15,443,090
Length 133
Max. P 0.998344
window20353 window20354

overview

Window 3

Location 15,442,957 – 15,443,090
Length 133
Sequences 5
Columns 154
Reading direction forward
Mean pairwise identity 60.57
Shannon entropy 0.64567
G+C content 0.43940
Mean single sequence MFE -35.25
Consensus MFE -13.44
Energy contribution -15.40
Covariance contribution 1.96
Combinations/Pair 1.24
Mean z-score -1.36
Structure conservation index 0.38
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.657599
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15442957 133 + 22422827
UUUAACAUUUCAGGUAGCAUUUGCCUU--GAUCGUGAGACUCGGACUUGAAGUGAGCGUUUGAGCAGGGGAAAAACUCCAAGCCGAGUCUCAAUCAAAACCAAAAAGAGACAUCUA-------------------AGUCGGCUCAACUCUGAUC
.........(((((((((.((((..((--(((..((((((((((.((((......((......)).(((......))))))))))))))))))))))...))))....(((.....-------------------.))).)))..)).)))).. ( -40.80, z-score =  -2.33, R)
>droSec1.super_37 18192 140 + 454039
-----------AGGUAGCAUUUGGCUUC-GAA-GUGAGACUCGGACUUGAAGUGAGUGUAUGAGCAGGGGAAAA-CUGCGAGCCGAGUCUCAAUCAAAACCAAAAAGAGACAUAGAGAUAAGAUGCCGAAUUAGAAUUCGGCUCAACUCUGAUC
-----------..((..(.(((((.((.-((.-.((((((((((((((.....))))......((((.......-))))...)))))))))).)).)).)))))..)..)).(((((....((.(((((((....)))))))))..)))))... ( -45.70, z-score =  -3.19, R)
>droYak2.chrX 9627322 114 + 21770863
-------------------UUUACUUUU-GGUCGUGAGACUCUGAUUUGAAGUGAGUGUAUGUGCAGGGGAAAAACUCCAAGCCGAGUCUCAAUCAAA-CCAAAAAGAGACAUCUA-------------------AUUCGGCUCAACUCUGAUC
-------------------...(((((.-((((....)))).......)))))((((.........((((.....)))).(((((((((((.......-.......))))).....-------------------..))))))..))))..... ( -27.45, z-score =  -0.37, R)
>droEre2.scaffold_4690 7156207 119 - 18748788
UUUAUUAUUGCGGGGAGCAUUUGCCCU--AGUCGUGAGACUCGGGCUUGAAGUGAGUGUAUGAGCAGGGGAAAAACUCCAAGCCGAGUCUCAAUCAAA--------------UCGA-------------------AUUCGGCUGAACUCUGAUC
..........(((((.((((((((((.--((((....)))).)))).......)))))).......((((.....)))).((((((((.((.......--------------..))-------------------))))))))...)))))... ( -38.51, z-score =  -1.65, R)
>droGri2.scaffold_15074 6835339 119 + 7742996
UUCUCUGUAUGCGUUUGUUUUUGCCUUGGGGAAACGUUAUCCUUGCUUGCGAUAAGAGAAUAAAUAAUGAAAGA----CAAACAAAGUC--AGUCAGA----------GACAAGUA-------------------AGACAGCUCAUGCCUGGUC
.((((((..(((((((((((((.((....))...((((((.....(((.......))).....)))))))))))----)))))...).)--)..))))----------))......-------------------.(((.((....))...))) ( -23.80, z-score =   0.76, R)
>consensus
UU_____U___AGGUAGCAUUUGCCUU__GGUCGUGAGACUCGGACUUGAAGUGAGUGUAUGAGCAGGGGAAAAACUCCAAGCCGAGUCUCAAUCAAA_CCAAAAAGAGACAUCUA___________________AUUCGGCUCAACUCUGAUC
..................................((((((((((.((((.(((.....................))).)))))))))))))).............................................((((.......)))).. (-13.44 = -15.40 +   1.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 15,442,957 – 15,443,090
Length 133
Sequences 5
Columns 154
Reading direction reverse
Mean pairwise identity 60.57
Shannon entropy 0.64567
G+C content 0.43940
Mean single sequence MFE -36.92
Consensus MFE -15.30
Energy contribution -16.14
Covariance contribution 0.84
Combinations/Pair 1.35
Mean z-score -2.80
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.33
SVM RNA-class probability 0.998344
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 15442957 133 - 22422827
GAUCAGAGUUGAGCCGACU-------------------UAGAUGUCUCUUUUUGGUUUUGAUUGAGACUCGGCUUGGAGUUUUUCCCCUGCUCAAACGCUCACUUCAAGUCCGAGUCUCACGAUC--AAGGCAAAUGCUACCUGAAAUGUUAAA
..((((.((..(((.(((.-------------------.....)))........((((((((((((((((((((((((((.........((......))..)))))))).))))))))))..)))--)))))....)))))))))......... ( -44.50, z-score =  -3.26, R)
>droSec1.super_37 18192 140 - 454039
GAUCAGAGUUGAGCCGAAUUCUAAUUCGGCAUCUUAUCUCUAUGUCUCUUUUUGGUUUUGAUUGAGACUCGGCUCGCAG-UUUUCCCCUGCUCAUACACUCACUUCAAGUCCGAGUCUCAC-UUC-GAAGCCAAAUGCUACCU-----------
(((.((((..(((((((((....))))))).))....))))..)))....(((((((((((.((((((((((...((((-.......))))......(((.......))))))))))))).-.))-)))))))))........----------- ( -49.00, z-score =  -5.87, R)
>droYak2.chrX 9627322 114 - 21770863
GAUCAGAGUUGAGCCGAAU-------------------UAGAUGUCUCUUUUUGG-UUUGAUUGAGACUCGGCUUGGAGUUUUUCCCCUGCACAUACACUCACUUCAAAUCAGAGUCUCACGACC-AAAAGUAAA-------------------
(.((..(((..(((((((.-------------------.(((....))).)))))-))..)))((((((((..(((((((.....................)))))))..).)))))))..)).)-.........------------------- ( -30.00, z-score =  -1.28, R)
>droEre2.scaffold_4690 7156207 119 + 18748788
GAUCAGAGUUCAGCCGAAU-------------------UCGA--------------UUUGAUUGAGACUCGGCUUGGAGUUUUUCCCCUGCUCAUACACUCACUUCAAGCCCGAGUCUCACGACU--AGGGCAAAUGCUCCCCGCAAUAAUAAA
((((.((((((....))))-------------------))))--------------))....((((((((((((((((((.....................)))))))).)))))))))).....--.((((....)))).............. ( -37.00, z-score =  -3.23, R)
>droGri2.scaffold_15074 6835339 119 - 7742996
GACCAGGCAUGAGCUGUCU-------------------UACUUGUC----------UCUGACU--GACUUUGUUUG----UCUUUCAUUAUUUAUUCUCUUAUCGCAAGCAAGGAUAACGUUUCCCCAAGGCAAAAACAAACGCAUACAGAGAA
(((..(((....)))))).-------------------......((----------((((..(--(..((((((((----((((.......(((((((.....(....)..))))))).........))))))..))))))..))..)))))). ( -24.09, z-score =  -0.37, R)
>consensus
GAUCAGAGUUGAGCCGAAU___________________UAGAUGUCUCUUUUUGG_UUUGAUUGAGACUCGGCUUGGAGUUUUUCCCCUGCUCAUACACUCACUUCAAGUCCGAGUCUCACGACC__AAGGCAAAUGCUACCU___A_____AA
..............................................................(((((((((((((((((.......................))))))))).)))))))).................................. (-15.30 = -16.14 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:46:42 2011