Locus 12145

Sequence ID dm3.chr3R
Location 26,032,942 – 26,033,013
Length 71
Max. P 0.994730
window16701 window16702

overview

Window 1

Location 26,032,942 – 26,033,013
Length 71
Sequences 12
Columns 72
Reading direction forward
Mean pairwise identity 74.57
Shannon entropy 0.56196
G+C content 0.42217
Mean single sequence MFE -15.68
Consensus MFE -8.14
Energy contribution -7.69
Covariance contribution -0.45
Combinations/Pair 1.54
Mean z-score -1.15
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.58
SVM RNA-class probability 0.751929
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26032942 71 + 27905053
GGCAGUUAAUCUACGUUCUGUUUGACAAUCGCUGAGCUUAGGUAAU-CGCUUAGCGAAUAACACAAGAACGG
.............((((((...((....(((((((((.........-.)))))))))....))..)))))). ( -21.30, z-score =  -2.89, R)
>droSim1.chr3R 25701145 71 + 27517382
GGCAGUUAAUCUACGUUCUGUUUGACAAUCGCUGAGCUUAGGUAAU-CGCUUAGCGAAUAACACAAGAACGG
.............((((((...((....(((((((((.........-.)))))))))....))..)))))). ( -21.30, z-score =  -2.89, R)
>droSec1.super_4 4884909 71 + 6179234
GGCAGUUAAUCUACGUUCUGUUUGACAAUCGCUGAGCUUAGGUAAU-CGCUUAGCGAAUAACACAAGAACGG
.............((((((...((....(((((((((.........-.)))))))))....))..)))))). ( -21.30, z-score =  -2.89, R)
>droYak2.chr3R 26966220 71 + 28832112
GCCCAUUUAUUUACGUUCUGUUUGACAACCGCUGAGCUGAGGUAAU-CGCUUAGCGCAUAACACAAGAACGG
.............((((((...((.....((((((((.((.....)-))))))))).....))..)))))). ( -21.00, z-score =  -2.90, R)
>droEre2.scaffold_4820 8505095 71 - 10470090
GGCCGUUAAUUUACGUUCUGUUUGACAAUCGCUGAGCUUGGGUGAU-CGCUUAGCGAAUAACACAAGAACGG
.............((((((...((....(((((((((.........-.)))))))))....))..)))))). ( -21.30, z-score =  -2.25, R)
>droAna3.scaffold_13340 21068243 72 + 23697760
GGUGAUUAUUCUGCGUUCUGUUUGACAAUCACUAGGGUAGGAUGAAACACCUAGCAAAUAACACAAGAACGG
((((.(((((((((..((((..((.....)).)))))))))))))..))))..................... ( -13.60, z-score =  -0.52, R)
>dp4.chr2 29319488 71 - 30794189
GGUCUUCAAUGUGCGUUCUGUUUGACAAUCACUAGGCCAAGAUGGG-CAUUCAGCGAAUAACACAAAAACGG
.........((((.(((......)))..((.((..(((......))-)....)).))....))))....... (  -9.00, z-score =   1.67, R)
>droPer1.super_7 168289 71 - 4445127
GGUCUUCAAUGUGCGUUCUGUUUGACAAUCACUAGGCCAAGAUGGG-CAUUCAGCGAAUAACACAAAAACGG
.........((((.(((......)))..((.((..(((......))-)....)).))....))))....... (  -9.00, z-score =   1.67, R)
>droWil1.scaffold_181130 9499202 68 + 16660200
----UUUAUUCUGCGUUCUGUUUGACAAUCACCGAACUAGAUGAAAGAUUUCGGCAAAUAACACAAGAACGA
----.........((((((...((.......(((((.............))))).......))..)))))). ( -10.36, z-score =  -0.30, R)
>droVir3.scaffold_12855 3116099 71 + 10161210
GUUAUUCACUUUGCGUUCUGUUUGACAUCCUCU-GAUUAGAGAGAUAAAUUCAGGGAAUAACACAAGAACGG
.............((((((........(((.((-((..............)))))))........)))))). ( -14.23, z-score =  -0.87, R)
>droMoj3.scaffold_6540 24062566 71 - 34148556
GGAAUUUGCUAUGCGUUCUGUUUGACAAUCACUGAAUGAUAAUGCUAAUU-CAGCGAAUAACACAAGAACGG
.............((((((...((....((.((((((..........)))-))).))....))..)))))). ( -14.30, z-score =  -1.42, R)
>droGri2.scaffold_14906 5811812 71 + 14172833
GGUACUUAAUGUGCGUUCUGUUUGACAAUCACUGAACGAGUAUCUAAAUU-CAGCAAAUAACACAAGAACGG
.((((.....))))((((((((((........)))))((((......)))-).............))))).. ( -11.50, z-score =  -0.26, R)
>consensus
GGCAUUUAAUCUGCGUUCUGUUUGACAAUCACUGAGCUAAGGUGAU_CGCUCAGCGAAUAACACAAGAACGG
.............((((((...((.......(((((.............))))).......))..)))))). ( -8.14 =  -7.69 +  -0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 26,032,942 – 26,033,013
Length 71
Sequences 12
Columns 72
Reading direction reverse
Mean pairwise identity 74.57
Shannon entropy 0.56196
G+C content 0.42217
Mean single sequence MFE -16.98
Consensus MFE -10.41
Energy contribution -9.82
Covariance contribution -0.59
Combinations/Pair 1.33
Mean z-score -1.99
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.73
SVM RNA-class probability 0.994730
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26032942 71 - 27905053
CCGUUCUUGUGUUAUUCGCUAAGCG-AUUACCUAAGCUCAGCGAUUGUCAAACAGAACGUAGAUUAACUGCC
..(((((..((.((.(((((.(((.-.........))).))))).)).))...)))))((((.....)))). ( -19.80, z-score =  -2.95, R)
>droSim1.chr3R 25701145 71 - 27517382
CCGUUCUUGUGUUAUUCGCUAAGCG-AUUACCUAAGCUCAGCGAUUGUCAAACAGAACGUAGAUUAACUGCC
..(((((..((.((.(((((.(((.-.........))).))))).)).))...)))))((((.....)))). ( -19.80, z-score =  -2.95, R)
>droSec1.super_4 4884909 71 - 6179234
CCGUUCUUGUGUUAUUCGCUAAGCG-AUUACCUAAGCUCAGCGAUUGUCAAACAGAACGUAGAUUAACUGCC
..(((((..((.((.(((((.(((.-.........))).))))).)).))...)))))((((.....)))). ( -19.80, z-score =  -2.95, R)
>droYak2.chr3R 26966220 71 - 28832112
CCGUUCUUGUGUUAUGCGCUAAGCG-AUUACCUCAGCUCAGCGGUUGUCAAACAGAACGUAAAUAAAUGGGC
.((((((..((.((..((((.(((.-.........))).))))..)).))...))))))............. ( -16.00, z-score =  -0.24, R)
>droEre2.scaffold_4820 8505095 71 + 10470090
CCGUUCUUGUGUUAUUCGCUAAGCG-AUCACCCAAGCUCAGCGAUUGUCAAACAGAACGUAAAUUAACGGCC
.((((((..((.((.(((((.(((.-.........))).))))).)).))...))))))............. ( -18.90, z-score =  -2.68, R)
>droAna3.scaffold_13340 21068243 72 - 23697760
CCGUUCUUGUGUUAUUUGCUAGGUGUUUCAUCCUACCCUAGUGAUUGUCAAACAGAACGCAGAAUAAUCACC
.((((((..((.((.(..(((((.((........)))))))..).)).))...))))))............. ( -18.50, z-score =  -3.04, R)
>dp4.chr2 29319488 71 + 30794189
CCGUUUUUGUGUUAUUCGCUGAAUG-CCCAUCUUGGCCUAGUGAUUGUCAAACAGAACGCACAUUGAAGACC
.((((((..((.((.((((((...(-((......))).)))))).)).))...))))))............. ( -14.40, z-score =  -0.66, R)
>droPer1.super_7 168289 71 + 4445127
CCGUUUUUGUGUUAUUCGCUGAAUG-CCCAUCUUGGCCUAGUGAUUGUCAAACAGAACGCACAUUGAAGACC
.((((((..((.((.((((((...(-((......))).)))))).)).))...))))))............. ( -14.40, z-score =  -0.66, R)
>droWil1.scaffold_181130 9499202 68 - 16660200
UCGUUCUUGUGUUAUUUGCCGAAAUCUUUCAUCUAGUUCGGUGAUUGUCAAACAGAACGCAGAAUAAA----
.((((((..((.((.(..(((((..((.......)))))))..).)).))...)))))).........---- ( -15.30, z-score =  -1.76, R)
>droVir3.scaffold_12855 3116099 71 - 10161210
CCGUUCUUGUGUUAUUCCCUGAAUUUAUCUCUCUAAUC-AGAGGAUGUCAAACAGAACGCAAAGUGAAUAAC
.((((((.((.....(((((((..............))-)).)))......))))))))............. ( -13.74, z-score =  -1.44, R)
>droMoj3.scaffold_6540 24062566 71 + 34148556
CCGUUCUUGUGUUAUUCGCUG-AAUUAGCAUUAUCAUUCAGUGAUUGUCAAACAGAACGCAUAGCAAAUUCC
.((((((..((.((.((((((-(((.(......).))))))))).)).))...))))))............. ( -17.80, z-score =  -3.08, R)
>droGri2.scaffold_14906 5811812 71 - 14172833
CCGUUCUUGUGUUAUUUGCUG-AAUUUAGAUACUCGUUCAGUGAUUGUCAAACAGAACGCACAUUAAGUACC
.((((((..((.((.(..(((-(((..........))))))..).)).))...))))))............. ( -15.30, z-score =  -1.52, R)
>consensus
CCGUUCUUGUGUUAUUCGCUAAACG_AUCACCUUAGCUCAGUGAUUGUCAAACAGAACGCAGAUUAAAUACC
.((((((..((.((.(((((...................))))).)).))...))))))............. (-10.41 =  -9.82 +  -0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:56:38 2011