Locus 8210

Sequence ID dm3.chr3L
Location 21,041,708 – 21,041,904
Length 196
Max. P 0.864171
window11284 window11285

overview

Window 4

Location 21,041,708 – 21,041,799
Length 91
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 73.59
Shannon entropy 0.46017
G+C content 0.43217
Mean single sequence MFE -20.60
Consensus MFE -9.10
Energy contribution -10.13
Covariance contribution 1.03
Combinations/Pair 1.29
Mean z-score -1.74
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.01
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr3L 21041708 91 + 24543557
--AUUUAUUUAACUA-AUACAUCACUGAAGCGAAUCAACUAACUAGGGACUUAGUUAGUGGGACCAGCUUUAGUCCCCCCA--AUUCGCCACCCCC---------
--.............-.............((((((..(((((((((....)))))))))(((((........)))))....--)))))).......--------- ( -22.60, z-score =  -3.02, R)
>droSim1.chr3L 20395796 91 + 22553184
--AUUUAUUUACCUA-AUACAUCACUGAAGCGAAUCGACUAACUAGGGACUUAGUUAGUGGGACCUGCUUUAGUCCACCCA--AUUCGCCACCCCC---------
--.............-.......(((((((((..((.(((((((((....))))))))).))...))))))))).......--.............--------- ( -21.30, z-score =  -2.23, R)
>droSec1.super_11 930230 91 + 2888827
--AUUUAUUUACCUA-AUACAUCACUGAAGCGAAUCGACUAACUAGGGACUUAGUUAGUGGGACCUGCUUUACUCCACCCA--AUUCGCCACCCCC---------
--.............-.............((((((..(((((((((....)))))))))(((...............))).--)))))).......--------- ( -17.76, z-score =  -1.48, R)
>droYak2.chr3L 4711161 91 - 24197627
--AUUUAUUUACCUA-AUACAUAAUUGAAGAGGAGCAACUAACUAGGGAAUUAGUUAGUGGGAGCUGCUUAAGUUCCCCCA--AUUCGCCACCCCC---------
--.............-..........(((..((....(((((((((....)))))))))(((((((.....))))))))).--.))).........--------- ( -23.60, z-score =  -1.97, R)
>droEre2.scaffold_4784 20723656 92 + 25762168
--AUUUAUUUACCUA-ACACCUAAUUGAAGCGGAUCAACUAACUAGGGACUUAGUUAGUGGGACCUCUUUUAGUCCCCUCA--AUUCGCCACCCCCA--------
--.............-.............((((((..(((((((((....)))))))))(((((........)))))....--))))))........-------- ( -22.10, z-score =  -2.03, R)
>droWil1.scaffold_180949 1023991 105 - 6375548
CUAACUAUUUACCCGUAUACAUAAUUGAAGAGGAGGAUAGUGCAGGAGGAAGAGGAAUUAGGAAAAGGGAUAGAGAAAGCAGGAUAUCCUAUAUCCAGAACCAGA
((.((((((..(((...............).))..))))))..))........((.....(((.(.((((((............)))))).).)))....))... ( -16.26, z-score =   0.30, R)
>consensus
__AUUUAUUUACCUA_AUACAUAACUGAAGCGAAUCAACUAACUAGGGACUUAGUUAGUGGGACCUGCUUUAGUCCACCCA__AUUCGCCACCCCC_________
.............................(((((...(((((((((....)))))))))(((...............)))....)))))................ ( -9.10 = -10.13 +   1.03)

alignment

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secondary structure

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dotplot

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Window 5

Location 21,041,799 – 21,041,904
Length 105
Sequences 10
Columns 109
Reading direction reverse
Mean pairwise identity 82.10
Shannon entropy 0.38165
G+C content 0.42876
Mean single sequence MFE -29.59
Consensus MFE -22.87
Energy contribution -22.79
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -1.40
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.97
SVM RNA-class probability 0.864171
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21041799 105 - 24543557
AAGCCACUUACCAGUAAAUCUCGUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCG-UGUGUUUUUGUUGUUUUCU---
....(((...((((((.(((((....))))).(((((....))))).......))))))(((((((.((........)).))))))-))))...............--- ( -27.20, z-score =  -0.81, R)
>droSim1.chr3L 20395887 103 - 22553184
AAGCCACUUACCAGUAAAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCG--ACG-UGUUGUUGUUUUCU---
....(((.((((((((.(((((....))))).....))))))))(((..(((....((((((((......))))))))...))).)--)))-))............--- ( -27.90, z-score =  -0.73, R)
>droSec1.super_11 930321 103 - 2888827
AAGCCACUUACCAGUAAAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCG--ACG-UGUUGUUGUUUUCU---
....(((.((((((((.(((((....))))).....))))))))(((..(((....((((((((......))))))))...))).)--)))-))............--- ( -27.90, z-score =  -0.73, R)
>droYak2.chr3L 4711252 103 + 24197627
GGGCAACUUACCAGUAAAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCG--AUG-UGUUGUUGUUUUCU---
(((((((..........(((((....)))))...((((((((..(...........((((((((......))))))))..)..)))--)))-))..)))))))...--- ( -31.62, z-score =  -1.87, R)
>droEre2.scaffold_4784 20723748 106 - 25762168
AAGCAACUUACCAGUAAAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCG--AUG-UGUUGUUGUUUUUUUUG
(((((((..........(((((....)))))...((((((((..(...........((((((((......))))))))..)..)))--)))-))..)))))))...... ( -32.12, z-score =  -2.51, R)
>droAna3.scaffold_13337 14642331 94 + 23293914
-----ACUUACCAGUAUAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCGGCAGUAUAGCUGCUCAUUCUGACG--GUCUAUGUUCUAU--------
-----....(((((((((((((....))))))....)))))))(..(...(((...((((((((......))))))))..)))..)--..)..........-------- ( -27.50, z-score =  -1.61, R)
>dp4.chrXR_group6 7346632 105 - 13314419
AGGACACUUACCAGUAGAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCGGCAGUGUAGCUGCUCAUUGUGUUU-CA-GCUGCUGUCAUUUACUU--
(((((...((((((((.(((((....))))).....)))))))))))))..((((...(((((((((..(((.((.....))))).-..-)))))))))...)))).-- ( -34.80, z-score =  -1.91, R)
>droPer1.super_41 702986 105 - 728894
AGGACACUUACCAGUAGAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCGGCAGUGUAGCUGCUCAUUGUGUUU-CA-GCUGCUGUCAUUUACUU--
(((((...((((((((.(((((....))))).....)))))))))))))..((((...(((((((((..(((.((.....))))).-..-)))))))))...)))).-- ( -34.80, z-score =  -1.91, R)
>droWil1.scaffold_180949 1024096 104 + 6375548
-----ACUUACCAGUAGAUUUCAUUAGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGAGCGGCCGUAUAGCUGCUCAUUCUGCUUCAAUAGAAACGUUGUGCUUUUGU
-----..(((((((((((((((......)).)))).)))))))))......(((((((((((((......))))))))(((((......))))).....)))))..... ( -29.00, z-score =  -1.66, R)
>droVir3.scaffold_13049 9935927 100 + 25233164
-----ACUUACCAGUAAAUCUCAUUCGAGGUAAUCAUAUUGGUGGUCUUGUAGUACUGGGCUGCCGUGUAGCUGCUCAUUGUGUAG--AUAUAUAUAGUAUAUAAAU--
-----..(((((((((.(((((....))))).....)))))))))..(((((.((((((((.((......)).))))).((((((.--...))))))))))))))..-- ( -23.10, z-score =  -0.30, R)
>consensus
AAGCCACUUACCAGUAAAUCUCAUUGGAGGUAAUCAUAUUGGUGGUCUUGUAAUACUGGGCGGCAGUGUAGCUGCUCAUUCUGCCG__AUG_UGUUGUUGUUUUCU___
.......(((((((((.(((((....))))).....)))))))))...........((((((((......))))))))............................... (-22.87 = -22.79 +  -0.08)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:41:22 2011