Locus 14957

Sequence ID dm3.chrX
Location 16,617,041 – 16,617,283
Length 242
Max. P 0.998319
window20610 window20611 window20612 window20613

overview

Window 0

Location 16,617,041 – 16,617,142
Length 101
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 85.80
Shannon entropy 0.24696
G+C content 0.36277
Mean single sequence MFE -16.84
Consensus MFE -12.36
Energy contribution -12.76
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.82
SVM RNA-class probability 0.825947
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16617041 101 - 22422827
AGCCAAGCGAAACCGUAGCCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGUAAAUUC-UAAAACUUCUCUACCAU------------
........(((((.(((.......))).)))))....(((.(.(((.........((((....))))((....))))).).)))-.................------------ ( -12.40, z-score =  -0.47, R)
>droEre2.scaffold_4690 6974887 112 - 18748788
AGCCAACCGAAACCGUAACCAUUAUACCGUUUCAACGGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAAGGUUAUUUC-AAAAACAUCUCUACUAUAAUGCUCAUGC-
(((.....(((((.(((.......))).)))))....(((((((((...(((...((((....)))).)))....)))))))))-....................))).....- ( -20.30, z-score =  -3.14, R)
>droYak2.chrX 15222440 99 - 21770863
AGCCAACCGAAACCGUAACCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAAGGUAAUUUCGAGAAACAUUUCUAC---------------
........(((((.(((.......))).)))))...((((((.(((...(((...((((....)))).)))....))).))))))((((....))))..--------------- ( -17.90, z-score =  -3.12, R)
>droSec1.super_17 440838 113 - 1527944
AGCCAAGCGAAACCGUAACCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGUAAUUUC-GAAAACUUCCCUACAAUAUUACUAAUACG
........(((((.(((.......))).)))))...((((((.(((.........((((....))))((....))))).)))))-)............................ ( -17.60, z-score =  -2.10, R)
>droSim1.chrX 12762962 113 - 17042790
AGCCAAGCGAAACCGUAACCAUUAAACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGUAAUUUC-GAAAACUUCUCUACAAUAUUACUAAUACG
........(((((.((.........)).)))))...((((((.(((.........((((....))))((....))))).)))))-)............................ ( -16.00, z-score =  -1.37, R)
>consensus
AGCCAAGCGAAACCGUAACCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGUAAUUUC_AAAAACUUCUCUACAAUA_U_CU_AU_C_
........(((((.(((.......))).)))))....(((((.(((...(((...((((....)))).)))....))).))))).............................. (-12.36 = -12.76 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,617,064 – 16,617,182
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 97.46
Shannon entropy 0.04304
G+C content 0.36610
Mean single sequence MFE -23.28
Consensus MFE -21.48
Energy contribution -21.68
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.726871
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16617064 118 - 22422827
UUAUUUGAUUAUUAUUUUCAAAUAUUGCUGCCACCUGGGUAGCCAAGCGAAACCGUAGCCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGU
....((((((.....((((.......((((((.....)))))).....(((((.(((.......))).)))))....))))......))))))..((((....))))((....))... ( -23.90, z-score =  -1.39, R)
>droEre2.scaffold_4690 6974921 118 - 18748788
CUAUUUGAUUAUUAUUUUCAAAUAUUGCUGCCACCUGGGUAGCCAACCGAAACCGUAACCAUUAUACCGUUUCAACGGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAAGGU
....((((((.((((((((.......((((((.....)))))).....(((((.(((.......))).)))))...))))))))...)))))).......(((............))) ( -25.60, z-score =  -2.51, R)
>droYak2.chrX 15222461 118 - 21770863
CUAUUUGAUUAUUAUUUUCAAAUAUUGCUGCCACCUGGGUAGCCAACCGAAACCGUAACCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAAGGU
.(((((((.........)))))))..((((((.....))))))..((((((((.(((.......))).)))))................(((...((((....)))).)))....))) ( -22.30, z-score =  -1.97, R)
>droSec1.super_17 440873 118 - 1527944
UUAUUUGAUUAUUAUUUUCAAAUAUUGCUGCCACCUGGGUAGCCAAGCGAAACCGUAACCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGU
....((((((.....((((.......((((((.....)))))).....(((((.(((.......))).)))))....))))......))))))..((((....))))((....))... ( -23.10, z-score =  -1.41, R)
>droSim1.chrX 12762997 118 - 17042790
UUAUUUGAUUAUUAUUUUCAAAUAUUGCUGCCACCUGGGUAGCCAAGCGAAACCGUAACCAUUAAACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGU
....((((((.....((((.......((((((.....)))))).....(((((.((.........)).)))))....))))......))))))..((((....))))((....))... ( -21.50, z-score =  -0.87, R)
>consensus
UUAUUUGAUUAUUAUUUUCAAAUAUUGCUGCCACCUGGGUAGCCAAGCGAAACCGUAACCAUUAUACCGUUUCAACCGAAAUAACCGAAUCAAUUUUACAACCGUAACUGAAAAGGGU
....((((((.....((((.......((((((.....)))))).....(((((.(((.......))).)))))....))))......))))))..((((....))))........... (-21.48 = -21.68 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,617,142 – 16,617,257
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.11
Shannon entropy 0.15334
G+C content 0.36213
Mean single sequence MFE -32.12
Consensus MFE -30.24
Energy contribution -30.76
Covariance contribution 0.52
Combinations/Pair 1.09
Mean z-score -3.55
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.32
SVM RNA-class probability 0.998319
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16617142 115 + 22422827
ACCCAGGUGGCAGCAAUAUUUGAAAAUAAUAAUCAAAUAAUGUUCCUCCAGAUGCUGUAGGUGCCCCAAACA----GCUGAGGUACUGAGUAUAGCAUCUAGAAAUAUUUAAAAACUUU-
.....((.((.((((.(((((((.........))))))).)))))).))((((((((((((((((.((....----..)).))))))...))))))))))...................- ( -34.70, z-score =  -4.22, R)
>droEre2.scaffold_4690 6974999 119 + 18748788
ACCCAGGUGGCAGCAAUAUUUGAAAAUAAUAAUCAAAUAGUGUUCCUCCAGAUGCUGAAGGUGCCUCAUACAUAUAGCUGAAGUACUGAGAAUAGCGUCUACAAUUAUUUUAAAACAUU-
.....((.((.((((.(((((((.........))))))).)))))).))((((((((..(((((.(((..........))).))))).....))))))))...................- ( -28.80, z-score =  -2.31, R)
>droYak2.chrX 15222539 115 + 21770863
ACCCAGGUGGCAGCAAUAUUUGAAAAUAAUAAUCAAAUAGUGUUCCUCCAGAUGCUGUAGGUGCCCCAAACA----GCUGAGGUACUAAGAAUAGCAUUUACAAUUAUUUAAAAGCAUU-
.....((.((.((((.(((((((.........))))))).)))))).))(((((((((.((((((.((....----..)).))))))....)))))))))...................- ( -30.30, z-score =  -2.77, R)
>droSec1.super_17 440951 115 + 1527944
ACCCAGGUGGCAGCAAUAUUUGAAAAUAAUAAUCAAAUAAUGUUCCUCCAGAUGCUGUAGGUGCCCCAAACA----GCUGAGGUACUGAGUAUAGCAUCUAGAAAUAUUUAAAAACUUU-
.....((.((.((((.(((((((.........))))))).)))))).))((((((((((((((((.((....----..)).))))))...))))))))))...................- ( -34.70, z-score =  -4.22, R)
>droSim1.chrX 12763075 116 + 17042790
ACCCAGGUGGCAGCAAUAUUUGAAAAUAAUAAUCAAAUAAUGUUCCUCCAGAUGCUGUAAGUGCCCCAAACA----GCUCAGGUACUGAGUAUAGCAUCUAGAAACAUUUAAAAAACUUU
.....((.((.((((.(((((((.........))))))).)))))).))((((((((((((((((.......----.....))))))...)))))))))).................... ( -32.10, z-score =  -4.22, R)
>consensus
ACCCAGGUGGCAGCAAUAUUUGAAAAUAAUAAUCAAAUAAUGUUCCUCCAGAUGCUGUAGGUGCCCCAAACA____GCUGAGGUACUGAGUAUAGCAUCUAGAAAUAUUUAAAAACAUU_
.....((.((.((((.(((((((.........))))))).)))))).))((((((((((((((((.((..........)).))))))...)))))))))).................... (-30.24 = -30.76 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,617,182 – 16,617,283
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.61
Shannon entropy 0.43117
G+C content 0.39359
Mean single sequence MFE -24.40
Consensus MFE -16.74
Energy contribution -17.26
Covariance contribution 0.52
Combinations/Pair 1.17
Mean z-score -1.00
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.586287
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16617182 101 + 22422827
UGUUCCUCCAGAUGCUGUAGGUGCCCCAAAC----AGCUGAGGUACUGAGUAUAGCAUCUAGAAAUAUUUAAAAA-CUUUGUAGCUGUCGCAAAUACGCCACAAUU--------------
......((.((((((((((((((((.((...----...)).))))))...)))))))))).))............-.........(((.((......)).)))...-------------- ( -25.50, z-score =  -1.81, R)
>droEre2.scaffold_4690 6975039 95 + 18748788
UGUUCCUCCAGAUGCUGAAGGUGCCUCAUACAUAUAGCUGAAGUACUGAGAAUAGCGUCUACAAUUAUUUUAAAA-CAUUGUACUUAUCGCCAAUU------------------------
.........((((((((..(((((.(((..........))).))))).....))))))))(((((..........-.)))))..............------------------------ ( -15.50, z-score =   0.07, R)
>droYak2.chrX 15222579 108 + 21770863
UGUUCCUCCAGAUGCUGUAGGUGCCCCAAAC----AGCUGAGGUACUAAGAAUAGCAUUUACAAUUAUUUAAAAG-CAUUGUUCUUAUCGUAAAGUUGAAAAAAAGUAGCAGU-------
.........(((((((((.((((((.((...----...)).))))))....)))))))))...............-.(((((((((.(((......)))....))).))))))------- ( -20.20, z-score =  -0.44, R)
>droSec1.super_17 440991 115 + 1527944
UGUUCCUCCAGAUGCUGUAGGUGCCCCAAAC----AGCUGAGGUACUGAGUAUAGCAUCUAGAAAUAUUUAAAAA-CUUUGUAGCUGUCGCAAAUACUGCACAAUUGGGAAGGUAGAGAU
.....(((.((((((((((((((((.((...----...)).))))))...))))))))))...............-((((.(((.(((.(((.....)))))).))).))))...))).. ( -32.90, z-score =  -1.83, R)
>droSim1.chrX 12763115 116 + 17042790
UGUUCCUCCAGAUGCUGUAAGUGCCCCAAAC----AGCUCAGGUACUGAGUAUAGCAUCUAGAAACAUUUAAAAAACUUUGUAGCUGUCGCAAAUACUGCACAAUUGGGAAAGUAGAGAU
((((..((.((((((((((((((((......----......))))))...)))))))))).))))))........(((((.(...(((.(((.....))))))....).)))))...... ( -27.90, z-score =  -1.01, R)
>consensus
UGUUCCUCCAGAUGCUGUAGGUGCCCCAAAC____AGCUGAGGUACUGAGUAUAGCAUCUAGAAAUAUUUAAAAA_CUUUGUAGCUGUCGCAAAUACGGCACAAUU__G_A_________
.........((((((((((((((((.((..........)).))))))...))))))))))............................................................ (-16.74 = -17.26 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:50:20 2011