Locus 7362

Sequence ID dm3.chr3L
Location 14,287,982 – 14,288,080
Length 98
Max. P 0.981762
window10140 window10141

overview

Window 0

Location 14,287,982 – 14,288,080
Length 98
Sequences 8
Columns 113
Reading direction forward
Mean pairwise identity 68.48
Shannon entropy 0.62256
G+C content 0.40474
Mean single sequence MFE -23.53
Consensus MFE -10.77
Energy contribution -11.78
Covariance contribution 1.00
Combinations/Pair 1.17
Mean z-score -1.19
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.784667
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14287982 98 + 24543557
AUGAUAACUGAAAGUUAUCUAUAUUGUAAAACGGUGGCUGCAGGGAGCCACCUAGCCAUGUUGAUUGAUUGUUUUAACCAAUCACAGAACACGAAGUU---------------
..((((((.....))))))....((((.....(((((((......))))))).......(((...((((((.......))))))...)))))))....--------------- ( -24.90, z-score =  -1.93, R)
>droSim1.chr3L 13639603 98 + 22553184
AUGAUAACUGAAAGUUAUCUAUUCUGUAAAACGGUGGCUGCAGGGAGCCACCUAGCCAUGUUGAUUGAUUGUUUUCACCAAUCACAGAACACGAAGCU---------------
..((((((.....))))))..((((((.....(((((((......)))))))..............(((((.......))))))))))).........--------------- ( -27.60, z-score =  -2.21, R)
>droSec1.super_0 6430548 98 + 21120651
AUUAUAACUGAAAGUUAUCUAUUCUGUAAAACGGUGGCUGCAGGGAGCCACCUAGCCAUGUUGAUUGAUUGUUUUCACCAAUCACAGAACACGAAGCU---------------
...(((((.....)))))...((((((.....(((((((......)))))))..............(((((.......))))))))))).........--------------- ( -23.80, z-score =  -1.21, R)
>droYak2.chr3L 14382278 98 + 24197627
AUGAUAACUGAAAGUUAUCUAUUCUGUAAAACGGUGGCUGCAGGGAGCUACCUAGCCAUGUUGAUUAAUUGUUUUC---------------CCCAAUCACAGAACACGAAGCU
..((((((.....))))))..((((((..((((.(((((..(((......))))))))))))((((..........---------------...))))))))))......... ( -22.82, z-score =  -1.00, R)
>droEre2.scaffold_4784 14274982 98 + 25762168
AUGAUAACUGCAAGUUAUCUAUACUGUAAAAUGUUGGCUGCAGGGAGCCACCUAGCCAUGUUGAUUGAUUGUUUUCACCAAUCACAGAACACGAAGCU---------------
..((((((.....))))))....((((.......(((((..(((......))))))))........(((((.......)))))))))...........--------------- ( -22.20, z-score =  -0.43, R)
>droAna3.scaffold_13337 18521148 111 - 23293914
AUGAUAACCGAGGGUUAUCUAUCCUUGAAAACGGUGGCAGCAGGGAGC--CCUAAUCGAAUUGAUUGAUUGCUUUUUUCCUUGUCUUUUAUCCCAAUCACAGAAAACAGAGUU
.((((...(((((((.....))))))).....(((((.(((((((((.--..(((((((.....))))))).....))))))).)).)))))...)))).............. ( -24.10, z-score =   0.20, R)
>dp4.chrXR_group6 6971125 106 + 13314419
AUGAUAACUGAAACUUAUCUAUCCC-UAAAAUGGCGCCCA-AGAGGGGAGCCAAAGCACACUGAUUGAUUGUUUUUGCCAAUCAACAAUCACAGAACAACACCAAAUA-----
..(((((.......)))))......-.....((((.(((.-....))).)))).......(((..((((((((..(....)..)))))))))))..............----- ( -21.40, z-score =  -1.53, R)
>droPer1.super_41 332382 106 + 728894
AUGAUAACUGAAACUUAUCUAUCCC-CAAAAUGGCGCCCA-AGAGGGGAGCCAAAGCACACUGAUUGAUUGUUUUUGCCAAUCAACAAUCACAGAACAACACCAAAUA-----
..(((((.......)))))......-.....((((.(((.-....))).)))).......(((..((((((((..(....)..)))))))))))..............----- ( -21.40, z-score =  -1.42, R)
>consensus
AUGAUAACUGAAAGUUAUCUAUCCUGUAAAACGGUGGCUGCAGGGAGCCACCUAGCCAUGUUGAUUGAUUGUUUUCACCAAUCACAGAACACGAAACU_______________
..((((((.....)))))).............(((.(((......))).))).............((((((.......))))))............................. (-10.77 = -11.78 +   1.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 14,287,982 – 14,288,080
Length 98
Sequences 8
Columns 113
Reading direction reverse
Mean pairwise identity 68.48
Shannon entropy 0.62256
G+C content 0.40474
Mean single sequence MFE -27.72
Consensus MFE -12.48
Energy contribution -13.47
Covariance contribution 1.00
Combinations/Pair 1.17
Mean z-score -1.96
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.08
SVM RNA-class probability 0.981762
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14287982 98 - 24543557
---------------AACUUCGUGUUCUGUGAUUGGUUAAAACAAUCAAUCAACAUGGCUAGGUGGCUCCCUGCAGCCACCGUUUUACAAUAUAGAUAACUUUCAGUUAUCAU
---------------....(((((((...((((((.......))))))...)))))))...(((((((......))))))).............((((((.....)))))).. ( -31.40, z-score =  -4.82, R)
>droSim1.chr3L 13639603 98 - 22553184
---------------AGCUUCGUGUUCUGUGAUUGGUGAAAACAAUCAAUCAACAUGGCUAGGUGGCUCCCUGCAGCCACCGUUUUACAGAAUAGAUAACUUUCAGUUAUCAU
---------------.......(((((((((((((((.......)))))))..........(((((((......))))))).....))))))))((((((.....)))))).. ( -33.90, z-score =  -4.26, R)
>droSec1.super_0 6430548 98 - 21120651
---------------AGCUUCGUGUUCUGUGAUUGGUGAAAACAAUCAAUCAACAUGGCUAGGUGGCUCCCUGCAGCCACCGUUUUACAGAAUAGAUAACUUUCAGUUAUAAU
---------------.......(((((((((((((((.......)))))))..........(((((((......))))))).....)))))))).(((((.....)))))... ( -30.20, z-score =  -3.20, R)
>droYak2.chr3L 14382278 98 - 24197627
AGCUUCGUGUUCUGUGAUUGGG---------------GAAAACAAUUAAUCAACAUGGCUAGGUAGCUCCCUGCAGCCACCGUUUUACAGAAUAGAUAACUUUCAGUUAUCAU
.......((((((((((.((((---------------.....)............(((((..((((....))))))))))))..))))))))))((((((.....)))))).. ( -27.10, z-score =  -2.17, R)
>droEre2.scaffold_4784 14274982 98 - 25762168
---------------AGCUUCGUGUUCUGUGAUUGGUGAAAACAAUCAAUCAACAUGGCUAGGUGGCUCCCUGCAGCCAACAUUUUACAGUAUAGAUAACUUGCAGUUAUCAU
---------------(((..((((((...((((((.......))))))...))))))))).(((.((.....)).)))................((((((.....)))))).. ( -26.00, z-score =  -1.39, R)
>droAna3.scaffold_13337 18521148 111 + 23293914
AACUCUGUUUUCUGUGAUUGGGAUAAAAGACAAGGAAAAAAGCAAUCAAUCAAUUCGAUUAGG--GCUCCCUGCUGCCACCGUUUUCAAGGAUAGAUAACCCUCGGUUAUCAU
.....((((((.(((.......))).)))))).((.....(((....((((.....))))(((--....)))))).)).((........))...(((((((...))))))).. ( -21.10, z-score =   0.90, R)
>dp4.chrXR_group6 6971125 106 - 13314419
-----UAUUUGGUGUUGUUCUGUGAUUGUUGAUUGGCAAAAACAAUCAAUCAGUGUGCUUUGGCUCCCCUCU-UGGGCGCCAUUUUA-GGGAUAGAUAAGUUUCAGUUAUCAU
-----....(((((.((((((((((((((((((((.......))))))).)))).)))..((((.(((....-.))).)))).....-))))))((......))...))))). ( -26.00, z-score =  -0.50, R)
>droPer1.super_41 332382 106 - 728894
-----UAUUUGGUGUUGUUCUGUGAUUGUUGAUUGGCAAAAACAAUCAAUCAGUGUGCUUUGGCUCCCCUCU-UGGGCGCCAUUUUG-GGGAUAGAUAAGUUUCAGUUAUCAU
-----....(((((.((((((((((((((((((((.......))))))).)))).)))..((((.(((....-.))).)))).....-))))))((......))...))))). ( -26.10, z-score =  -0.27, R)
>consensus
_______________AGCUUCGUGUUCUGUGAUUGGUGAAAACAAUCAAUCAACAUGGCUAGGUGGCUCCCUGCAGCCACCGUUUUACAGAAUAGAUAACUUUCAGUUAUCAU
.............................((((((.......)))))).............(((.(((......))).))).............((((((.....)))))).. (-12.48 = -13.47 +   1.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:25:32 2011