Locus 7393

Sequence ID dm3.chr3L
Location 14,543,125 – 14,543,221
Length 96
Max. P 0.961464
window10177 window10178

overview

Window 7

Location 14,543,125 – 14,543,221
Length 96
Sequences 14
Columns 113
Reading direction forward
Mean pairwise identity 69.90
Shannon entropy 0.63174
G+C content 0.44185
Mean single sequence MFE -24.62
Consensus MFE -12.57
Energy contribution -13.04
Covariance contribution 0.47
Combinations/Pair 1.50
Mean z-score -1.43
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.69
SVM RNA-class probability 0.961464
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14543125 96 + 24543557
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGCGAAAUCAU--UUU-AUAUA-UGGCUUCGAUCUGC--------GCUGAUUACA
...((((((((.........((((.....))))........-----...))))))))(((((((..(((--...-....)-))..))).....))--------))........ ( -26.05, z-score =  -1.58, R)
>droSim1.chr3L 13868871 96 + 22553184
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGCGAAAUCAU--UUU-AUAUA-UGGCUUCGAUCUGC--------GCUGAUUACA
...((((((((.........((((.....))))........-----...))))))))(((((((..(((--...-....)-))..))).....))--------))........ ( -26.05, z-score =  -1.58, R)
>droSec1.super_0 6668365 96 + 21120651
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGCGAAAUCAU--UUU-AUAUA-UGGCUUCGAUCUGC--------GCUGAUUACA
...((((((((.........((((.....))))........-----...))))))))(((((((..(((--...-....)-))..))).....))--------))........ ( -26.05, z-score =  -1.58, R)
>droYak2.chr3L 14628732 96 + 24197627
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGCGAAAUCAU--UUU-AUAUA-UGGCUUCGAUCUGC--------GCUGAUUACA
...((((((((.........((((.....))))........-----...))))))))(((((((..(((--...-....)-))..))).....))--------))........ ( -26.05, z-score =  -1.58, R)
>droEre2.scaffold_4784 14509595 97 + 25762168
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGCGAAAUCAU--UUUUAUAUA-UGGCUUCGAUCUGC--------GCUGAUUACA
...((((((((.........((((.....))))........-----...))))))))(((((((..(((--........)-))..))).....))--------))........ ( -26.35, z-score =  -1.62, R)
>droAna3.scaffold_13337 18744439 97 - 23293914
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGUGAAAUCAU--UUUUAUAUU-GAUUUUCGAUAGGC--------GCUGAUAUCA
...((((((((.(........).))))))))......((.(-----((.((((..((((..(((((((.--........)-))))))..)))).)--------))).))))). ( -29.60, z-score =  -2.95, R)
>dp4.chrXR_group6 7239269 104 + 13314419
UGUAGUCCGCCAGAAAACUGACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGCGAAAUCAU--UUU-AUAUA-GAUCUGUGAUCUGCUGUUUCCUAUUGAUUAUA
..(((((((((.......(.((((.....)))).)......-----...))))))))).....(((((.--...-(((((-((((...)))))).))).......)))))... ( -25.89, z-score =  -1.04, R)
>droPer1.super_41 592308 104 + 728894
UGUAGUCCGCCAGAAAACUGACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGCGAAAUCAU--UUU-AUAUA-GAUCUGUGAUCUGCUGUUUCCUAUUGAUUAUA
..(((((((((.......(.((((.....)))).)......-----...))))))))).....(((((.--...-(((((-((((...)))))).))).......)))))... ( -25.89, z-score =  -1.04, R)
>droWil1.scaffold_180955 431668 80 + 2875958
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGCGGACUGUGUGAAAUCAU--UUUUGUAUU-GAUUUUG-------------------------
...((((((((.........((((.....))))........-----...))))))))....(((((((.--........)-)))))).------------------------- ( -23.15, z-score =  -2.97, R)
>droVir3.scaffold_13049 16624625 86 + 25233164
UGUAGUCCGCUAGGAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGUGGACUGUGUGAAAUCAU--UUU-AUAGGCUGUCGUUUCUCUA-------------------
..(((((((((((....))....))))))))).........-----...((..(.(((((((....)))--...-)))).)..)).........------------------- ( -20.80, z-score =  -0.56, R)
>droMoj3.scaffold_6680 4673489 85 - 24764193
UAUAGUCCGCUAGGAAACUAACGGGUGGACUGUGACUGAAU-----AUGGGUGGACUGUGCGAAAUCAU--UUU-AUAGA-UGGAUUUUCUCUA-------------------
(((((((((((((....)).((((.....))))........-----...))))))))))).((((((((--(..-...))-)))..))))....------------------- ( -23.60, z-score =  -2.37, R)
>droGri2.scaffold_15110 8080395 92 - 24565398
UAUAGUCCACCAUGAAACUAAUGGGUGGACUGUGACUGAAU-----AUGGGUGGACUGUGUGAAAUCAU--UUU-AUAGAUUGCUUUCUUUCUGUAGGCG-------------
(((((((((((((.......)).)))))))))))((.(((.-----..(((..(.(((((((....)))--...-)))).)..)))...))).)).....------------- ( -25.60, z-score =  -2.24, R)
>anoGam1.chrU 50918180 89 - 59568033
-----------AAAAAAUCAAACGCUUGACUUCGGCUCGAUUGGUAACGGAUGCUCUGUCGGGAAUCAC-GGUAGAUAAC-GUUGACAGAUCUAAUCUAACG-----------
-----------.....(((((.((...(.(....)).)).)))))...((((..((((((((..(((..-....)))..)-..)))))))....))))....----------- ( -16.10, z-score =   0.42, R)
>triCas2.chrUn_141 59436 90 + 118057
UGUAGUCGGAAAGAUAUCCUGUUGGAGGGCUGUGGCUAAAC-----ACCGGCGGACUGUGUGCCACCAACAUUUCAUAAGCUACUGCAGGACACA------------------
((((((.(((......)))((((((..((.(((......))-----)))((((.......)))).))))))...........)))))).......------------------ ( -23.50, z-score =   0.66, R)
>consensus
UGAAGUCCGCCAGAAAACUAACGGGUGGACUGUGACUGAAU_____AUGGGCGGACUGUGCGAAAUCAU__UUU_AUAUA_UGGCUUCGAUCUGC__________UGAUUA_A
...((((((((((....)).((((.....))))................))))))))........................................................ (-12.57 = -13.04 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 14,543,125 – 14,543,221
Length 96
Sequences 14
Columns 113
Reading direction reverse
Mean pairwise identity 69.90
Shannon entropy 0.63174
G+C content 0.44185
Mean single sequence MFE -16.60
Consensus MFE -7.55
Energy contribution -7.51
Covariance contribution -0.04
Combinations/Pair 1.86
Mean z-score -0.90
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.06
SVM RNA-class probability 0.523737
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14543125 96 - 24543557
UGUAAUCAGC--------GCAGAUCGAAGCCA-UAUAU-AAA--AUGAUUUCGCACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
........((--------(.((((((......-.....-...--.)))))))))..((((((((...-----..............................))))))))... ( -17.97, z-score =  -0.80, R)
>droSim1.chr3L 13868871 96 - 22553184
UGUAAUCAGC--------GCAGAUCGAAGCCA-UAUAU-AAA--AUGAUUUCGCACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
........((--------(.((((((......-.....-...--.)))))))))..((((((((...-----..............................))))))))... ( -17.97, z-score =  -0.80, R)
>droSec1.super_0 6668365 96 - 21120651
UGUAAUCAGC--------GCAGAUCGAAGCCA-UAUAU-AAA--AUGAUUUCGCACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
........((--------(.((((((......-.....-...--.)))))))))..((((((((...-----..............................))))))))... ( -17.97, z-score =  -0.80, R)
>droYak2.chr3L 14628732 96 - 24197627
UGUAAUCAGC--------GCAGAUCGAAGCCA-UAUAU-AAA--AUGAUUUCGCACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
........((--------(.((((((......-.....-...--.)))))))))..((((((((...-----..............................))))))))... ( -17.97, z-score =  -0.80, R)
>droEre2.scaffold_4784 14509595 97 - 25762168
UGUAAUCAGC--------GCAGAUCGAAGCCA-UAUAUAAAA--AUGAUUUCGCACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
........((--------(.((((((......-.........--.)))))))))..((((((((...-----..............................))))))))... ( -17.90, z-score =  -0.78, R)
>droAna3.scaffold_13337 18744439 97 + 23293914
UGAUAUCAGC--------GCCUAUCGAAAAUC-AAUAUAAAA--AUGAUUUCACACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
.(((((..((--------(.((.....(((((-(........--.)))))).....))..)))..))-----)))..............(((((((....)))))))...... ( -15.20, z-score =  -0.60, R)
>dp4.chrXR_group6 7239269 104 - 13314419
UAUAAUCAAUAGGAAACAGCAGAUCACAGAUC-UAUAU-AAA--AUGAUUUCGCACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUCAGUUUUCUGGCGGACUACA
...(((((...(....)...(((((...))))-)....-...--.)))))......((((((((...-----..............................))))))))... ( -19.41, z-score =  -1.56, R)
>droPer1.super_41 592308 104 - 728894
UAUAAUCAAUAGGAAACAGCAGAUCACAGAUC-UAUAU-AAA--AUGAUUUCGCACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUCAGUUUUCUGGCGGACUACA
...(((((...(....)...(((((...))))-)....-...--.)))))......((((((((...-----..............................))))))))... ( -19.41, z-score =  -1.56, R)
>droWil1.scaffold_180955 431668 80 - 2875958
-------------------------CAAAAUC-AAUACAAAA--AUGAUUUCACACAGUCCGCCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
-------------------------..(((((-(........--.)))))).....((((((((...-----..............................))))))))... ( -13.21, z-score =  -2.04, R)
>droVir3.scaffold_13049 16624625 86 - 25233164
-------------------UAGAGAAACGACAGCCUAU-AAA--AUGAUUUCACACAGUCCACCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUCCUAGCGGACUACA
-------------------(((......(((.......-...--..((((......)))).......-----.....))).........(((((((....))))))).))).. ( -11.65, z-score =  -0.89, R)
>droMoj3.scaffold_6680 4673489 85 + 24764193
-------------------UAGAGAAAAUCCA-UCUAU-AAA--AUGAUUUCGCACAGUCCACCCAU-----AUUCAGUCACAGUCCACCCGUUAGUUUCCUAGCGGACUAUA
-------------------((((.........-)))).-...--............(((((......-----.....((........))..(((((....))))))))))... ( -10.10, z-score =  -0.64, R)
>droGri2.scaffold_15110 8080395 92 + 24565398
-------------CGCCUACAGAAAGAAAGCAAUCUAU-AAA--AUGAUUUCACACAGUCCACCCAU-----AUUCAGUCACAGUCCACCCAUUAGUUUCAUGGUGGACUAUA
-------------........((..(((.(.((((...-...--..)))).).....(......)..-----.)))..))..((((((((............))))))))... ( -14.10, z-score =  -0.89, R)
>anoGam1.chrU 50918180 89 + 59568033
-----------CGUUAGAUUAGAUCUGUCAAC-GUUAUCUACC-GUGAUUCCCGACAGAGCAUCCGUUACCAAUCGAGCCGAAGUCAAGCGUUUGAUUUUUU-----------
-----------.....(((....((((((...-(..(((....-..)))..).))))))..))).......(((((((((........).))))))))....----------- ( -16.00, z-score =  -0.33, R)
>triCas2.chrUn_141 59436 90 - 118057
------------------UGUGUCCUGCAGUAGCUUAUGAAAUGUUGGUGGCACACAGUCCGCCGGU-----GUUUAGCCACAGCCCUCCAACAGGAUAUCUUUCCGACUACA
------------------.(((((..((.((.(((....(((..((((((((.....).))))))).-----.)))))).)).)).........(((......)))))).)). ( -23.50, z-score =  -0.12, R)
>consensus
U_UAAUCA__________GCAGAUCGAAGACA_UAUAU_AAA__AUGAUUUCGCACAGUCCGCCCAU_____AUUCAGUCACAGUCCACCCGUUAGUUUUCUGGCGGACUUCA
.........................................................................................(((((((....)))))))...... ( -7.55 =  -7.51 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:26:02 2011