Locus 14099

Sequence ID dm3.chrX
Location 11,139,927 – 11,140,020
Length 93
Max. P 0.999553
window19390 window19391

overview

Window 0

Location 11,139,927 – 11,140,020
Length 93
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 64.29
Shannon entropy 0.62653
G+C content 0.34584
Mean single sequence MFE -17.78
Consensus MFE -4.95
Energy contribution -5.48
Covariance contribution 0.53
Combinations/Pair 1.08
Mean z-score -1.98
Structure conservation index 0.28
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.22
SVM RNA-class probability 0.601231
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11139927 93 + 22422827
----AAAUACAUACACCGCAAACGCCUAAUAGAUUUUCAAUAGAAAAUCCAUUCAAGGACGCUCUGAUGAUUUUUCGU-UCGCAAAAAAAAAAAAAGU-----------------
----.............((...((((((((.(((((((....))))))).)))..))).))....(((((....))))-).))...............----------------- ( -14.50, z-score =  -1.83, R)
>droSim1.chrX_random 3127203 80 + 5698898
-------------------AAACG-CUAAUAGAUUUUCAAUAGAAAAUCCAUUCAAGGCCGCUGUGAUGAUUUUUCGU-UAGCAAAAAAAAAAAAAAAAGU--------------
-------------------....(-(((((.(((((((....)))))))((((..((....))..)))).......))-))))..................-------------- ( -13.90, z-score =  -1.76, R)
>droSec1.super_15 1829724 78 + 1954846
-------------------AAACGCCUAAUAGAUUUUCAAUAGAAAAUCCAUUCAAGGCCGCUGUGAUGAUUUAUCCG-CCCCAAAAAAAAAAAAAGU-----------------
-------------------....(((((((.(((((((....))))))).)))..)))).((.(.((((...))))))-)..................----------------- ( -12.40, z-score =  -2.34, R)
>droYak2.chrX 10769148 100 - 21770863
--AAAAAUACAUUCAACACAAACGACUAAUAGAUUUUCAAUAGAAAAUCCAUUCAAGGCCGCUGUGAUGAUUUUUCGU-GCGCAAAAAAAAAAAAGAAAAAGU------------
--..........(((.((((..((.(((((.(((((((....))))))).)))..))..)).)))).)))((((((..-................))))))..------------ ( -14.17, z-score =  -1.02, R)
>droEre2.scaffold_4690 14743360 91 - 18748788
---AAAAAACAGCCACCACAAACGCCUAAUAGAUUUUCAAUAGAAAAUCCAUUCAAGGCCGCUGUGAUGAUUUU-CGU-CCACAAAAAAAAGAAGU-------------------
---.....(((((..........(((((((.(((((((....))))))).)))..)))).)))))((((.....-)))-)................------------------- ( -17.60, z-score =  -3.27, R)
>droAna3.scaffold_13248 2699289 114 + 4840945
AGAGAAAUAUGAAUUCCCUUAGAA-CUAAUGGAUUUUCAAUAGAAAGCCUAUUCAAGGCCACUCCGCCCGCAGCGGGAACCGCUGGCCAAAAAAUUGCUGGGCGGAAAAAAGGAU
.........((((.(((.(((...-.))).)))..)))).......((((.....))))...(((((((.((((((...))))))((.........)).)))))))......... ( -34.10, z-score =  -1.66, R)
>consensus
____AAAUACA__CACC_CAAACGCCUAAUAGAUUUUCAAUAGAAAAUCCAUUCAAGGCCGCUGUGAUGAUUUUUCGU_CCGCAAAAAAAAAAAAAGA_________________
...............................(((((((....)))))))((((..((....))..)))).............................................. ( -4.95 =  -5.48 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 11,139,927 – 11,140,020
Length 93
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 64.29
Shannon entropy 0.62653
G+C content 0.34584
Mean single sequence MFE -24.97
Consensus MFE -12.21
Energy contribution -12.22
Covariance contribution 0.00
Combinations/Pair 1.30
Mean z-score -2.96
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.01
SVM RNA-class probability 0.999553
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 11139927 93 - 22422827
-----------------ACUUUUUUUUUUUUUGCGA-ACGAAAAAUCAUCAGAGCGUCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUGCGGUGUAUGUAUUU----
-----------------.........(((((((...-.))))))).((((.(((((.(((..(((((((((((....)))))))))))))))))))..)))).........---- ( -24.50, z-score =  -3.01, R)
>droSim1.chrX_random 3127203 80 - 5698898
--------------ACUUUUUUUUUUUUUUUUGCUA-ACGAAAAAUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAG-CGUUU-------------------
--------------............(((((((...-.)))))))...........((....(((((((((((....))))))))))).)-)....------------------- ( -14.40, z-score =  -1.68, R)
>droSec1.super_15 1829724 78 - 1954846
-----------------ACUUUUUUUUUUUUUGGGG-CGGAUAAAUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUU-------------------
-----------------..................(-(.(((.....)))...)).((((..(((((((((((....)))))))))))))))....------------------- ( -19.60, z-score =  -2.84, R)
>droYak2.chrX 10769148 100 + 21770863
------------ACUUUUUCUUUUUUUUUUUUGCGC-ACGAAAAAUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGUCGUUUGUGUUGAAUGUAUUUUU--
------------..............(((((((...-.)))))))(((.(((((((((....(((((((((((....))))))))))).)))).))))).)))..........-- ( -25.50, z-score =  -3.83, R)
>droEre2.scaffold_4690 14743360 91 + 18748788
-------------------ACUUCUUUUUUUUGUGG-ACG-AAAAUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUGUGGUGGCUGUUUUUU---
-------------------........((((((...-.))-))))(((((((((..((((..(((((((((((....)))))))))))))))..))))))))).........--- ( -28.80, z-score =  -4.41, R)
>droAna3.scaffold_13248 2699289 114 - 4840945
AUCCUUUUUUCCGCCCAGCAAUUUUUUGGCCAGCGGUUCCCGCUGCGGGCGGAGUGGCCUUGAAUAGGCUUUCUAUUGAAAAUCCAUUAG-UUCUAAGGGAAUUCAUAUUUCUCU
.((((((.((((((((..(((....)))((.(((((...))))))))))))))).(((((.....)))))..(((.((......)).)))-....)))))).............. ( -37.00, z-score =  -1.96, R)
>consensus
_________________ACUUUUUUUUUUUUUGCGG_ACGAAAAAUCAUCACAGCGGCCUUGAAUGGAUUUUCUAUUGAAAAUCUAUUAGGCGUUUG_GGUG__UGUAUUU____
..........................(((((((.....))))))).......((((.(....(((((((((((....))))))))))).).)))).................... (-12.21 = -12.22 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:33:36 2011