Locus 14359

Sequence ID dm3.chrX
Location 12,885,511 – 12,885,607
Length 96
Max. P 0.997036
window19767 window19768

overview

Window 7

Location 12,885,511 – 12,885,607
Length 96
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 73.32
Shannon entropy 0.44980
G+C content 0.47590
Mean single sequence MFE -30.03
Consensus MFE -12.88
Energy contribution -12.92
Covariance contribution 0.03
Combinations/Pair 1.45
Mean z-score -2.27
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.89
SVM RNA-class probability 0.844691
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12885511 96 + 22422827
---------------CGGAUUCUUAGCAUCCGACAUGUGUACAGCGGGGAAUUCGU-ACACA--UUUGCAUUUCGGAUGCGAUGCAGUCGAAGGGAAAUGUGGAAAUGGGGAAA---
---------------((((((((..((.....((....))...))..)))))))).-.((((--(((.(.(((((..(((...)))..)))))).)))))))............--- ( -27.80, z-score =  -1.69, R)
>droSim1.chrX 9815013 94 + 17042790
---------------CGGAUUCUUAGCAUCCGACAUGUGUACGACGGGGAAUUCGU-ACACA--UUUGCAUUUCGGAUGCGAUGCAGUCGAAGGGAAAUGUGGAAAUGGGAA-----
---------------....((((((((((((((.((((((((((........))))-)))))--).......))))))))...(((.((....))...))).....))))))----- ( -30.70, z-score =  -2.66, R)
>droSec1.super_21 627789 94 + 1102487
---------------CGGAUUCUUAGCAUCCGACAUGUGUACGACGGGGAAUUCGU-ACACA--UUUGCAUUUCGGAUGCGAUGCAGUCGAAGGGAAAUGUGGAAAUGGGAA-----
---------------....((((((((((((((.((((((((((........))))-)))))--).......))))))))...(((.((....))...))).....))))))----- ( -30.70, z-score =  -2.66, R)
>droYak2.chrX 7156411 96 + 21770863
---------------CGGAUUCUUGGCAUACGACAUGUGUACGAUGGGGAAUUCGU-ACACACAUUUGCAUUUCGGAUGCGAUGCAGUCGCAGGGAAAUGUGGAAAUGGGAA-----
---------------....(((((...........(((((((((........))))-)))))..((..((((((...((((((...))))))..))))))..))...)))))----- ( -31.00, z-score =  -2.98, R)
>droEre2.scaffold_4690 4771666 94 - 18748788
---------------CGGAUUCUUAGCAUGCGACAUGUGUACGAUGGGGAAUUCGU-ACGCA--UUUGCAUUUCGGAUGCGAUGCAGUCGAAGGGAAAUGGAGAAAUGAGAG-----
---------------.....(((((.(.(((((.((((((((((........))))-)))))--))))))(((((..(((...)))..))))).........)...))))).----- ( -29.00, z-score =  -2.63, R)
>droAna3.scaffold_13117 3816317 115 + 5790199
CAAUUCCAUUUCCCUUGAUAUGUGUACGUGUGGCAGUGGAACAUUGGGGAAUUCGUUGCCCA--UUUACAUUUGCAUUUUAGCAGAGUAGCCGAGUAGCCGAGUAGCAGGGAGAGAA
........(((((((..((.((..(((...((((.(((((....((((.((....)).))))--))))).(((((......)))))...)))).)))..)).))...)))))))... ( -31.00, z-score =  -1.01, R)
>consensus
_______________CGGAUUCUUAGCAUCCGACAUGUGUACGACGGGGAAUUCGU_ACACA__UUUGCAUUUCGGAUGCGAUGCAGUCGAAGGGAAAUGUGGAAAUGGGAA_____
..............................((((.(((((((((........)))).)))))...(((((((...)))))))....))))........................... (-12.88 = -12.92 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,885,511 – 12,885,607
Length 96
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 73.32
Shannon entropy 0.44980
G+C content 0.47590
Mean single sequence MFE -24.38
Consensus MFE -10.46
Energy contribution -11.72
Covariance contribution 1.25
Combinations/Pair 1.29
Mean z-score -3.52
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.03
SVM RNA-class probability 0.997036
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12885511 96 - 22422827
---UUUCCCCAUUUCCACAUUUCCCUUCGACUGCAUCGCAUCCGAAAUGCAAA--UGUGU-ACGAAUUCCCCGCUGUACACAUGUCGGAUGCUAAGAAUCCG---------------
---..................................((((((((.......(--(((((-(((..........))))))))).))))))))..........--------------- ( -22.70, z-score =  -3.22, R)
>droSim1.chrX 9815013 94 - 17042790
-----UUCCCAUUUCCACAUUUCCCUUCGACUGCAUCGCAUCCGAAAUGCAAA--UGUGU-ACGAAUUCCCCGUCGUACACAUGUCGGAUGCUAAGAAUCCG---------------
-----................................((((((((.......(--(((((-((((........)))))))))).))))))))..........--------------- ( -26.80, z-score =  -4.56, R)
>droSec1.super_21 627789 94 - 1102487
-----UUCCCAUUUCCACAUUUCCCUUCGACUGCAUCGCAUCCGAAAUGCAAA--UGUGU-ACGAAUUCCCCGUCGUACACAUGUCGGAUGCUAAGAAUCCG---------------
-----................................((((((((.......(--(((((-((((........)))))))))).))))))))..........--------------- ( -26.80, z-score =  -4.56, R)
>droYak2.chrX 7156411 96 - 21770863
-----UUCCCAUUUCCACAUUUCCCUGCGACUGCAUCGCAUCCGAAAUGCAAAUGUGUGU-ACGAAUUCCCCAUCGUACACAUGUCGUAUGCCAAGAAUCCG---------------
-----....................(((((((((((..(....)..)))))...((((((-((((........)))))))))))))))).............--------------- ( -25.40, z-score =  -4.33, R)
>droEre2.scaffold_4690 4771666 94 + 18748788
-----CUCUCAUUUCUCCAUUUCCCUUCGACUGCAUCGCAUCCGAAAUGCAAA--UGCGU-ACGAAUUCCCCAUCGUACACAUGUCGCAUGCUAAGAAUCCG---------------
-----.......((((.........((((..(((...)))..))))((((..(--((.((-((((........)))))).)))...))))....))))....--------------- ( -19.40, z-score =  -2.99, R)
>droAna3.scaffold_13117 3816317 115 - 5790199
UUCUCUCCCUGCUACUCGGCUACUCGGCUACUCUGCUAAAAUGCAAAUGUAAA--UGGGCAACGAAUUCCCCAAUGUUCCACUGCCACACGUACACAUAUCAAGGGAAAUGGAAUUG
((((.(((((.......((((....))))....(((......)))..((((..--((((((..((((........))))...)))).))..)))).......)))))...))))... ( -25.20, z-score =  -1.45, R)
>consensus
_____UUCCCAUUUCCACAUUUCCCUUCGACUGCAUCGCAUCCGAAAUGCAAA__UGUGU_ACGAAUUCCCCAUCGUACACAUGUCGGAUGCUAAGAAUCCG_______________
.........................(((((((((((..(....)..)))))....(((((.((((........))))))))).))))))............................ (-10.46 = -11.72 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:38:42 2011