Locus 15260

Sequence ID dm3.chrX
Location 18,169,311 – 18,169,406
Length 95
Max. P 0.657245
window21024 window21025

overview

Window 4

Location 18,169,311 – 18,169,406
Length 95
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 71.21
Shannon entropy 0.52026
G+C content 0.53281
Mean single sequence MFE -26.00
Consensus MFE -14.17
Energy contribution -13.68
Covariance contribution -0.49
Combinations/Pair 1.63
Mean z-score -1.12
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.657245
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18169311 95 + 22422827
------ACCGCCGCUGGCACCCCAGUCAUCGU-CAUCGAUUGUCAUGCAUUAGCCAUUAGGGUUUUACACUAACGCCACCGAAUGGCAGGCACAGACAAUCA-----
------..((..(((((....)))))...)).-....(((((((.(((....((((((..(((.(((...))).)))....))))))..)))..))))))).----- ( -28.60, z-score =  -2.38, R)
>droSim1.chrX 14011065 95 + 17042790
------ACCGCCGCUGGCACCCCAGUCGUCGU-CAUCGACUGUCAUGCAUUAGCCAUUAGGGUUUUACACUAACGCCACCGAAUGGCAGGCACAGACAAUCA-----
------...(((....(((...((((((....-...))))))...)))....((((((..(((.(((...))).)))....)))))).)))...........----- ( -28.60, z-score =  -1.81, R)
>droSec1.super_8 481955 95 + 3762037
------ACCGCCGCUGGCACCCCAGUCGUCGU-CAUCGACUGUCAUGCAUUAGCCAUUAGGGUUUUACACUAACGCCACCGAAUGGCAGGCACAGACAAUCA-----
------...(((....(((...((((((....-...))))))...)))....((((((..(((.(((...))).)))....)))))).)))...........----- ( -28.60, z-score =  -1.81, R)
>droYak2.chrX 16800786 101 + 21770863
ACCGCCACCGAUGCCGGCACCCCAGUCAUCGC-CAUCGACUGUCAUGCAUUAGCUAUUAGGGUCUUACACUAACGCCAUCGAAUGGCAGGCACAGACAAUCG-----
...(((...(((((.((....)).).))))((-(((((((((....((....))...)))(((.(((...))).))).))).))))).)))...........----- ( -26.20, z-score =  -0.84, R)
>droEre2.scaffold_4690 8496573 95 + 18748788
------ACCGCCGCCGGCACUCCAGUCAUCGC-CAUAGACCGUCAUGCAUUAGUUAUUAGGGUUUUACACUAACGCCACCAAAUGGCAGGCACAGACAAUCG-----
------...(((...)))......(((...((-(..(((((.(.((((....).))).).))))).........((((.....)))).)))...))).....----- ( -20.00, z-score =  -0.27, R)
>droGri2.scaffold_15081 3363766 101 - 4274704
---AGCAUCAUAAACCAGGCGUUACACAUUGGGCAUAUUUGGCCAUAUAC-AUUGACAGGCGCCGCACAC--GCCCGGGCAACUGGUAAAUAGAUUCCACAUGCAUG
---.((((.........((((((...((.(((.((....)).))).....-..))...))))))......--..((((....))))..............))))... ( -24.00, z-score =   0.39, R)
>consensus
______ACCGCCGCCGGCACCCCAGUCAUCGU_CAUCGACUGUCAUGCAUUAGCCAUUAGGGUUUUACACUAACGCCACCGAAUGGCAGGCACAGACAAUCA_____
.........(((....(((...(((((..........)))))...)))....((((((.((.................)).)))))).)))................ (-14.17 = -13.68 +  -0.49)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,169,311 – 18,169,406
Length 95
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 71.21
Shannon entropy 0.52026
G+C content 0.53281
Mean single sequence MFE -32.18
Consensus MFE -23.64
Energy contribution -21.56
Covariance contribution -2.08
Combinations/Pair 1.61
Mean z-score -0.54
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.655351
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 18169311 95 - 22422827
-----UGAUUGUCUGUGCCUGCCAUUCGGUGGCGUUAGUGUAAAACCCUAAUGGCUAAUGCAUGACAAUCGAUG-ACGAUGACUGGGGUGCCAGCGGCGGU------
-----.(((((((.((((..((((((.(((.(((....)))...)))..))))))....)))))))))))....-.((.((.((((....)))))).))..------ ( -32.50, z-score =  -1.18, R)
>droSim1.chrX 14011065 95 - 17042790
-----UGAUUGUCUGUGCCUGCCAUUCGGUGGCGUUAGUGUAAAACCCUAAUGGCUAAUGCAUGACAGUCGAUG-ACGACGACUGGGGUGCCAGCGGCGGU------
-----.(((((((.((((..((((((.(((.(((....)))...)))..))))))....)))))))))))....-.((.((.((((....)))))).))..------ ( -34.20, z-score =  -1.20, R)
>droSec1.super_8 481955 95 - 3762037
-----UGAUUGUCUGUGCCUGCCAUUCGGUGGCGUUAGUGUAAAACCCUAAUGGCUAAUGCAUGACAGUCGAUG-ACGACGACUGGGGUGCCAGCGGCGGU------
-----.(((((((.((((..((((((.(((.(((....)))...)))..))))))....)))))))))))....-.((.((.((((....)))))).))..------ ( -34.20, z-score =  -1.20, R)
>droYak2.chrX 16800786 101 - 21770863
-----CGAUUGUCUGUGCCUGCCAUUCGAUGGCGUUAGUGUAAGACCCUAAUAGCUAAUGCAUGACAGUCGAUG-GCGAUGACUGGGGUGCCGGCAUCGGUGGCGGU
-----..((((((...(((.(((((.((((.((((((((.((......))...))))))))......)))))))-))((((.((((....))))))))))))))))) ( -36.70, z-score =  -0.93, R)
>droEre2.scaffold_4690 8496573 95 - 18748788
-----CGAUUGUCUGUGCCUGCCAUUUGGUGGCGUUAGUGUAAAACCCUAAUAACUAAUGCAUGACGGUCUAUG-GCGAUGACUGGAGUGCCGGCGGCGGU------
-----..........((((.(((..(((((...(((((.(.....).))))).))))).((((..(((((....-.....)))))..)))).)))))))..------ ( -28.60, z-score =  -0.12, R)
>droGri2.scaffold_15081 3363766 101 + 4274704
CAUGCAUGUGGAAUCUAUUUACCAGUUGCCCGGGC--GUGUGCGGCGCCUGUCAAU-GUAUAUGGCCAAAUAUGCCCAAUGUGUAACGCCUGGUUUAUGAUGCU---
((((((..(((((.....)).)))..)))((((((--(((..((((....)))...-((((((......)))))).....)..).))))))))...))).....--- ( -26.90, z-score =   1.42, R)
>consensus
_____UGAUUGUCUGUGCCUGCCAUUCGGUGGCGUUAGUGUAAAACCCUAAUGGCUAAUGCAUGACAGUCGAUG_ACGAUGACUGGGGUGCCAGCGGCGGU______
.....((((((((.((((..(((((...)))))((((((..............)))))))))))))))))).....((.((.((((....)))))).))........ (-23.64 = -21.56 +  -2.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:55:59 2011