Locus 15717

Sequence ID dm3.chrX
Location 20,594,058 – 20,594,156
Length 98
Max. P 0.978553
window21655 window21656

overview

Window 5

Location 20,594,058 – 20,594,156
Length 98
Sequences 11
Columns 102
Reading direction forward
Mean pairwise identity 75.96
Shannon entropy 0.52764
G+C content 0.51026
Mean single sequence MFE -29.58
Consensus MFE -18.64
Energy contribution -18.69
Covariance contribution 0.05
Combinations/Pair 1.29
Mean z-score -1.67
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.00
SVM RNA-class probability 0.978553
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20594058 98 + 22422827
-CAAAGGCGGCCAAGUGGAAGAGCGUCACAGAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCA--CACUCGAGGGCUGGCCGGAGAC-
-......((((((.(((((((...(((.(((..(((((((...))))).)).((....))))).)))....))))))--).((....)).)))))).....- ( -31.80, z-score =  -1.68, R)
>droEre2.scaffold_4690 17189425 98 + 18748788
-CAAAGGCGGCCAAGUGGAAGAGCGUCACAGAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCA--CACUCGAGGGCUGGCCGGAGAC-
-......((((((.(((((((...(((.(((..(((((((...))))).)).((....))))).)))....))))))--).((....)).)))))).....- ( -31.80, z-score =  -1.68, R)
>droYak2.chrX 19821483 98 + 21770863
-CAAAGGCGGCCAAGUGGAAGAGCGUCGCAGAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCA--CACUCGAGGGCAGGCCGGAGAC-
-......(((((..(((((((...(((((((..(((((((...))))).)).((....)))))))))....))))))--).((....))..))))).....- ( -36.60, z-score =  -3.10, R)
>droSec1.super_8 2830918 98 + 3762037
-CAAAGGCGGCCAAGUGGAAGAGCGUCACAGAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCA--CACUCGAGGGCUGGCCGGAGAC-
-......((((((.(((((((...(((.(((..(((((((...))))).)).((....))))).)))....))))))--).((....)).)))))).....- ( -31.80, z-score =  -1.68, R)
>dp4.chrXL_group1e 9235640 85 + 12523060
CGAGAGGCAGCCAAGUGGAAAAGCGUCACAAAAGUGCCAUAAAAUGGCAACACCAAAUGGCUGCGAUUUAAUUUCCA--CUGUUGAG---------------
(((.(((((((((..(((....((.........))(((((...)))))....)))..)))))))((.......))..--)).)))..--------------- ( -25.40, z-score =  -2.46, R)
>droPer1.super_22 719031 85 - 1688296
CGAGAGGCAGCCAAGUGGAAAAGCGUCACAAAAGUGCCAUAAAAUGGCAACACCAAAUGGCUGCGAUUUAAUUUCCA--CUGUUGAG---------------
(((.(((((((((..(((....((.........))(((((...)))))....)))..)))))))((.......))..--)).)))..--------------- ( -25.40, z-score =  -2.46, R)
>droSim1.chrX 15816156 98 + 17042790
-CAAAGGCGGCCAAGUGGAAGAGCGUCACAGAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCA--CACUCGAGGGCUGGCCGAAGAC-
-......((((((.(((((((...(((.(((..(((((((...))))).)).((....))))).)))....))))))--).((....)).)))))).....- ( -31.60, z-score =  -1.93, R)
>droAna3.scaffold_12903 697955 95 - 802071
-GGAGGGCAGCCAAGUGGAAAAGCGUCACAAAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCA------CACUAGGUUGCGAUGGGAA
-.....(((((((..(((......(((((....))(((((...)))))))).)))..))))))).......((((((------(.(......).).)))))) ( -27.60, z-score =  -1.18, R)
>droWil1.scaffold_180702 1828804 101 - 4511350
-GGAGUUUAGCCAAGUGGAAAAGCAACGCAAAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCAAGUGCCCGCCAGCUGGUGACAACAA
-.(((((((((((..(((....((...))....(((((((...))))).)).)))..)))))).))))).........((...((((....))))...)).. ( -26.30, z-score =  -0.26, R)
>droVir3.scaffold_12970 4914672 95 + 11907090
-CGACGGCAGCCAAGUGGAAGUGGAUUAGAAGAGUGCCAUAAAAUGGCGACACCAAAUGCUAGCGAUCUAA-UUCAA--CGGCAGGCGGUGCGCAGGAA---
-.....((((((..((.(...(((((((((...(((((((...))))).))......((....)).)))))-)))).--).)).)))..))).......--- ( -23.00, z-score =   0.54, R)
>droGri2.scaffold_15081 3849178 93 - 4274704
-UGUGGGCUGCCAAGUGAAAGUGGCGAGCAAAAGUGCCGUAAAAUGUCGACGCCAAAUGCUUGCGAUUUA--UUUCA----CUGGCGAGUGUACGGGGAA--
-.(((.(((((((.((((((((.(((((((...(((.((........)).)))....))))))).))...--)))))----))))).))).)))......-- ( -34.10, z-score =  -2.46, R)
>consensus
_CAAAGGCAGCCAAGUGGAAGAGCGUCACAAAAGUGCCAUAAAAUGGCGACACCAAAUGGCUGCGAUUUAAUUUCCA__CACUCGAGGGCUGGCCGGAGAC_
......(((((((..(((.........((....))(((((...)))))....)))..)))))))...................................... (-18.64 = -18.69 +   0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,594,058 – 20,594,156
Length 98
Sequences 11
Columns 102
Reading direction reverse
Mean pairwise identity 75.96
Shannon entropy 0.52764
G+C content 0.51026
Mean single sequence MFE -27.07
Consensus MFE -13.17
Energy contribution -12.91
Covariance contribution -0.26
Combinations/Pair 1.33
Mean z-score -1.64
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.97
SVM RNA-class probability 0.863496
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20594058 98 - 22422827
-GUCUCCGGCCAGCCCUCGAGUG--UGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUCUGUGACGCUCUUCCACUUGGCCGCCUUUG-
-.....((((((((......))(--(((((......((((((((((.(((.....)))....))))).....))))).....)))))).))))))......- ( -29.80, z-score =  -1.61, R)
>droEre2.scaffold_4690 17189425 98 - 18748788
-GUCUCCGGCCAGCCCUCGAGUG--UGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUCUGUGACGCUCUUCCACUUGGCCGCCUUUG-
-.....((((((((......))(--(((((......((((((((((.(((.....)))....))))).....))))).....)))))).))))))......- ( -29.80, z-score =  -1.61, R)
>droYak2.chrX 19821483 98 - 21770863
-GUCUCCGGCCUGCCCUCGAGUG--UGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUCUGCGACGCUCUUCCACUUGGCCGCCUUUG-
-.....(((((.((......))(--(((((......((((((((((.(((.....)))....))))).....))))).....))))))..)))))......- ( -30.20, z-score =  -1.75, R)
>droSec1.super_8 2830918 98 - 3762037
-GUCUCCGGCCAGCCCUCGAGUG--UGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUCUGUGACGCUCUUCCACUUGGCCGCCUUUG-
-.....((((((((......))(--(((((......((((((((((.(((.....)))....))))).....))))).....)))))).))))))......- ( -29.80, z-score =  -1.61, R)
>dp4.chrXL_group1e 9235640 85 - 12523060
---------------CUCAACAG--UGGAAAUUAAAUCGCAGCCAUUUGGUGUUGCCAUUUUAUGGCACUUUUGUGACGCUUUUCCACUUGGCUGCCUCUCG
---------------.....(((--((((((.....((((((((....)))..((((((...))))))....)))))....))))))).))........... ( -23.20, z-score =  -1.89, R)
>droPer1.super_22 719031 85 + 1688296
---------------CUCAACAG--UGGAAAUUAAAUCGCAGCCAUUUGGUGUUGCCAUUUUAUGGCACUUUUGUGACGCUUUUCCACUUGGCUGCCUCUCG
---------------.....(((--((((((.....((((((((....)))..((((((...))))))....)))))....))))))).))........... ( -23.20, z-score =  -1.89, R)
>droSim1.chrX 15816156 98 - 17042790
-GUCUUCGGCCAGCCCUCGAGUG--UGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUCUGUGACGCUCUUCCACUUGGCCGCCUUUG-
-.....((((((((......))(--(((((......((((((((((.(((.....)))....))))).....))))).....)))))).))))))......- ( -29.60, z-score =  -1.60, R)
>droAna3.scaffold_12903 697955 95 + 802071
UUCCCAUCGCAACCUAGUG------UGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUUUGUGACGCUUUUCCACUUGGCUGCCCUCC-
...(((.(((......)))------)))..........(((((((..((((((((((((...)))))((....)))))).....)))..))))))).....- ( -30.10, z-score =  -3.36, R)
>droWil1.scaffold_180702 1828804 101 + 4511350
UUGUUGUCACCAGCUGGCGGGCACUUGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUUUGCGUUGCUUUUCCACUUGGCUAAACUCC-
..(((((((.....))))((.((..((((((...((.(((((((((.(((.....)))....))))).....))))))...))))))..)).)).)))...- ( -26.50, z-score =  -0.18, R)
>droVir3.scaffold_12970 4914672 95 - 11907090
---UUCCUGCGCACCGCCUGCCG--UUGAA-UUAGAUCGCUAGCAUUUGGUGUCGCCAUUUUAUGGCACUCUUCUAAUCCACUUCCACUUGGCUGCCGUCG-
---.....((((((((..(((..--.(((.-.....)))...)))..))))).)))......((((((..(...................)..))))))..- ( -20.61, z-score =  -0.16, R)
>droGri2.scaffold_15081 3849178 93 + 4274704
--UUCCCCGUACACUCGCCAG----UGAAA--UAAAUCGCAAGCAUUUGGCGUCGACAUUUUACGGCACUUUUGCUCGCCACUUUCACUUGGCAGCCCACA-
--..............(((((----(((((--......((.((((...((.((((........)))).))..)))).))...)))))).))))........- ( -25.00, z-score =  -2.39, R)
>consensus
_GUCUCCGGCCAGCCCUCGAGUG__UGGAAAUUAAAUCGCAGCCAUUUGGUGUCGCCAUUUUAUGGCACUUUUGUGACGCUCUUCCACUUGGCCGCCUUUG_
.........................(((((......((((((......(((((((........))))))).)))))).....)))))............... (-13.17 = -12.91 +  -0.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:04:32 2011