Locus 13813

Sequence ID dm3.chrX
Location 9,333,516 – 9,333,657
Length 141
Max. P 0.997893
window18999 window19000 window19001 window19002

overview

Window 9

Location 9,333,516 – 9,333,628
Length 112
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 83.36
Shannon entropy 0.33076
G+C content 0.49762
Mean single sequence MFE -22.13
Consensus MFE -15.96
Energy contribution -16.35
Covariance contribution 0.39
Combinations/Pair 1.11
Mean z-score -1.64
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.70
SVM RNA-class probability 0.790527
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9333516 112 + 22422827
CAUCGUGCCGUUUCUUUCGCCUGCUUCGAG-UCCUUCUCAAACGCGUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUC
...((.((..........((((((((.(((-.....))).))...)))).))....(((((((..(((((((.......)))))))...)))))))........))))..... ( -25.30, z-score =  -1.99, R)
>droSim1.chrX 7430585 112 + 17042790
CAUCGUGCCCUCUCUUUCGCCUGCUUCGAG-UCCUUCCCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUC
..(((.((...(......)...))..))).-..........(((....(((((...(((((((..(((((((.......)))))))...)))))))....)).)))...))). ( -21.40, z-score =  -1.72, R)
>droSec1.super_15 102195 112 + 1954846
CAUCGUGCCCUCUCUUUCGCCUGCUUCGAG-UCCUUCUCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUC
...((.((..........((((((((.(((-.....))).)).))..)).))....(((((((..(((((((.......)))))))...)))))))........))))..... ( -23.90, z-score =  -2.42, R)
>droYak2.chrX 17923132 113 + 21770863
CAUCGUGCCCUCUCUUUCGCCUGCUUUGGGGUCCUUCGCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCAUUUGUUGACUCCUCUUUGACUUGCAGUCGCCGUCUUC
.................((.((((.....((..((..((....))..))..))...(((((((..(((((((.......)))))))...)))))))..)))).))........ ( -27.60, z-score =  -1.56, R)
>droEre2.scaffold_4690 12967393 112 - 18748788
CAUCGUGCCAUCUCUUUCGCCUGCUUCGGC-UCCUUCUCAAAUGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUC
...((.((..........((..(((..(((-............))).)))))....(((((((..(((((((.......)))))))...)))))))........))))..... ( -24.50, z-score =  -2.63, R)
>droAna3.scaffold_13334 1361210 92 - 1562580
CUUCGUCCUUCAUCCUUCG---GCCAGAAUAUCCUCCUCA--------GCGCUAAUGUUAAACGAAGUCAACCACUUUUGUUGAUUCCCUUUUGACUUUC-GUC---------
........(((...(....---)...)))...........--------(((.....((((((.(.(((((((.......)))))))..).))))))...)-)).--------- ( -10.10, z-score =   0.50, R)
>consensus
CAUCGUGCCCUCUCUUUCGCCUGCUUCGAG_UCCUUCUCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUC
................................................(((((...(((((((..(((((((.......)))))))...)))))))....)).)))....... (-15.96 = -16.35 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 9,333,516 – 9,333,628
Length 112
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 83.36
Shannon entropy 0.33076
G+C content 0.49762
Mean single sequence MFE -31.68
Consensus MFE -19.51
Energy contribution -21.35
Covariance contribution 1.84
Combinations/Pair 1.12
Mean z-score -2.56
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.74
SVM RNA-class probability 0.964744
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9333516 112 - 22422827
GACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUACGCGUUUGAGAAGGA-CUCGAAGCAGGCGAAAGAAACGGCACGAUG
.....((((........(((((((..((((((((.......)))))))).)))))))....((.((..((.((((((.....-))))))))))))..........)).))... ( -31.70, z-score =  -2.08, R)
>droSim1.chrX 7430585 112 - 17042790
GACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGGGAAGGA-CUCGAAGCAGGCGAAAGAGAGGGCACGAUG
.....((((..((....(((((((..((((((((.......)))))))).)))))))....((.....((.((((((.....-))))))))..)).......)).)).))... ( -31.20, z-score =  -1.92, R)
>droSec1.super_15 102195 112 - 1954846
GACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGAGAAGGA-CUCGAAGCAGGCGAAAGAGAGGGCACGAUG
.....((((..((....(((((((..((((((((.......)))))))).)))))))....((.....((.((((((.....-))))))))..)).......)).)).))... ( -32.10, z-score =  -2.26, R)
>droYak2.chrX 17923132 113 - 21770863
GAAGACGGCGACUGCAAGUCAAAGAGGAGUCAACAAAUGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGCGAAGGACCCCAAAGCAGGCGAAAGAGAGGGCACGAUG
.....((((...((((((((((((..((((((((.......)))))))).))))))).)).)))((...(((((((...((...))...)))))))....))...)).))... ( -34.70, z-score =  -2.39, R)
>droEre2.scaffold_4690 12967393 112 + 18748788
GACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCAUUUGAGAAGGA-GCCGAAGCAGGCGAAAGAGAUGGCACGAUG
..((.((((..((....(((((((..((((((((.......)))))))).)))))))....((.....))........))..-))))..((...(....).....)).))... ( -35.10, z-score =  -3.89, R)
>droAna3.scaffold_13334 1361210 92 + 1562580
---------GAC-GAAAGUCAAAAGGGAAUCAACAAAAGUGGUUGACUUCGUUUAACAUUAGCGC--------UGAGGAGGAUAUUCUGGC---CGAAGGAUGAAGGACGAAG
---------(((-....))).........(((((.......)))))((((((((..((((..((.--------(.((((.....)))).).---))...))))..)))))))) ( -25.30, z-score =  -2.82, R)
>consensus
GACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGAGAAGGA_CUCGAAGCAGGCGAAAGAGAGGGCACGAUG
.................(((((((..((((((((.......)))))))).)))))))....((.....((.((((((......))))))))...(....).....))...... (-19.51 = -21.35 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 9,333,545 – 9,333,657
Length 112
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 87.00
Shannon entropy 0.25629
G+C content 0.45926
Mean single sequence MFE -28.46
Consensus MFE -23.02
Energy contribution -25.13
Covariance contribution 2.11
Combinations/Pair 1.13
Mean z-score -3.44
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.20
SVM RNA-class probability 0.997893
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9333545 112 + 22422827
GUCCUUCUCAAACGCGUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUCACUGUUGGUGCUAAGCAAAUUUCG-CACUC
.............((.(((..((((.(((((((..(((((((.......)))))))...)))))))...((((.((....)).))))))))..))).))........-..... ( -32.00, z-score =  -3.92, R)
>droSim1.chrX 7430614 112 + 17042790
GUCCUUCCCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUCACUGUUGGUGCUAAGCAAAUUUCG-CACUC
.............((.(((..((((.(((((((..(((((((.......)))))))...)))))))...((((.((....)).))))))))..))).))........-..... ( -32.00, z-score =  -4.52, R)
>droSec1.super_15 102224 112 + 1954846
GUCCUUCUCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUCACUAUUGGUGCUAAGCAAAUUUCG-CACUC
.............((.(((..((((((((((((..(((((((.......)))))))...)))))))....(((.((....)).))))))))..))).))........-..... ( -30.70, z-score =  -4.38, R)
>droYak2.chrX 17923162 112 + 21770863
GUCCUUCGCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCAUUUGUUGACUCCUCUUUGACUUGCAGUCGCCGUCUUCACUGUUGGUGCUAAGCAAAUUUCG-CACUC
.......((....))..(((((....(((((((..(((((((.......)))))))...)))))))((((((.(((((.(......).)))))))..)))).....)-)))). ( -32.50, z-score =  -3.44, R)
>droEre2.scaffold_4690 12967422 112 - 18748788
CUCCUUCUCAAAUGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUCACUGUUGGUGCCAAGCAAAUUUCG-CACUC
............(((...(..((((.(((((((..(((((((.......)))))))...)))))))...((((.((....)).))))))))..)...))).......-..... ( -28.40, z-score =  -3.37, R)
>droAna3.scaffold_13334 1361237 95 - 1562580
AUCCUCCUCA--------GCGCUAAUGUUAAACGAAGUCAACCACUUUUGUUGAUUCCCUUUUGACUU----------UCGUCACUUAAAGUGCUAAACAAAUUUGGACACUC
.(((.....(--------(((((..........(.(((((((.......))))))).)....((((..----------..)))).....))))))..........)))..... ( -15.16, z-score =  -0.97, R)
>consensus
GUCCUUCUCAAACGCCUAGUGCUAAUGUCAAAGUAAGUCAACCGCUUUUGUUGACUCCUCUUUGACUUCCAGUCGCCGUCGUCACUGUUGGUGCUAAGCAAAUUUCG_CACUC
.............((.(((((((((.(((((((..(((((((.......)))))))...)))))))...((((.((....)).))))))))))))).)).............. (-23.02 = -25.13 +   2.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 9,333,545 – 9,333,657
Length 112
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 87.00
Shannon entropy 0.25629
G+C content 0.45926
Mean single sequence MFE -30.82
Consensus MFE -22.06
Energy contribution -23.42
Covariance contribution 1.36
Combinations/Pair 1.04
Mean z-score -1.97
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.69
SVM RNA-class probability 0.788362
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9333545 112 - 22422827
GAGUG-CGAAAUUUGCUUAGCACCAACAGUGACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUACGCGUUUGAGAAGGAC
.((((-(.....(((((..((((.....))).)...)))))......(((((((..((((((((.......)))))))).)))))))....)))))................. ( -32.30, z-score =  -2.09, R)
>droSim1.chrX 7430614 112 - 17042790
GAGUG-CGAAAUUUGCUUAGCACCAACAGUGACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGGGAAGGAC
.((((-(.....(((((..((((.....))).)...)))))......(((((((..((((((((.......)))))))).)))))))....)))))................. ( -32.30, z-score =  -2.00, R)
>droSec1.super_15 102224 112 - 1954846
GAGUG-CGAAAUUUGCUUAGCACCAAUAGUGACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGAGAAGGAC
.((((-(.....(((((..((((.....))).)...)))))......(((((((..((((((((.......)))))))).)))))))....)))))................. ( -32.30, z-score =  -2.37, R)
>droYak2.chrX 17923162 112 - 21770863
GAGUG-CGAAAUUUGCUUAGCACCAACAGUGAAGACGGCGACUGCAAGUCAAAGAGGAGUCAACAAAUGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGCGAAGGAC
...((-((((...((((((((((.....)))...........((((((((((((..((((((((.......)))))))).))))))).)).))))))))))))))))...... ( -32.90, z-score =  -1.74, R)
>droEre2.scaffold_4690 12967422 112 + 18748788
GAGUG-CGAAAUUUGCUUGGCACCAACAGUGACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCAUUUGAGAAGGAG
.((((-(.....((((((.((((.....))).).).)))))......(((((((..((((((((.......)))))))).)))))))....)))))................. ( -32.00, z-score =  -2.09, R)
>droAna3.scaffold_13334 1361237 95 + 1562580
GAGUGUCCAAAUUUGUUUAGCACUUUAAGUGACGA----------AAGUCAAAAGGGAAUCAACAAAAGUGGUUGACUUCGUUUAACAUUAGCGC--------UGAGGAGGAU
....((((.....(.((((((.((.....((((..----------..))))(((.(((.(((((.......))))).))).)))......)).))--------)))).))))) ( -23.10, z-score =  -1.54, R)
>consensus
GAGUG_CGAAAUUUGCUUAGCACCAACAGUGACGACGGCGACUGGAAGUCAAAGAGGAGUCAACAAAAGCGGUUGACUUACUUUGACAUUAGCACUAGGCGUUUGAGAAGGAC
.((((.(.....(((((...(((.....))).....)))))......(((((((..((((((((.......)))))))).)))))))....)))))................. (-22.06 = -23.42 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:28:15 2011