Locus 4725

Sequence ID dm3.chr2R
Location 15,302,336 – 15,302,425
Length 89
Max. P 0.682512
window6485 window6486

overview

Window 5

Location 15,302,336 – 15,302,425
Length 89
Sequences 13
Columns 89
Reading direction forward
Mean pairwise identity 91.93
Shannon entropy 0.19710
G+C content 0.57724
Mean single sequence MFE -29.91
Consensus MFE -28.35
Energy contribution -28.43
Covariance contribution 0.08
Combinations/Pair 1.00
Mean z-score -0.90
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.631207
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15302336 89 + 21146708
CCGAUUUCCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGA
............(((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))))... ( -28.60, z-score =  -0.54, R)
>droGri2.scaffold_15245 13573705 88 + 18325388
-UCGCAUUCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAGGA
-..........((((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))))).. ( -32.00, z-score =  -1.37, R)
>droMoj3.scaffold_6496 15765795 89 + 26866924
CAGCAUUUCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
.(((......)))((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))).... ( -30.10, z-score =  -1.29, R)
>droVir3.scaffold_12875 9450944 89 - 20611582
GCAUGAAUCAACUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGA
.......(((..(((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))))))) ( -28.90, z-score =  -0.88, R)
>droWil1.scaffold_180708 9060108 89 - 12563649
CAUCGCACAAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
....((....))(((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))))... ( -29.40, z-score =  -0.85, R)
>droPer1.super_2 6081051 89 - 9036312
CUUGCUUCCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAGGU
...........((((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))))).. ( -32.00, z-score =  -1.19, R)
>dp4.chr3 17014135 89 - 19779522
CUUGCUUCCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAGGU
...........((((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))))).. ( -32.00, z-score =  -1.19, R)
>droAna3.scaffold_13266 17922778 89 - 19884421
GCUCCCCUCAACUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
..........(((((((((((((((.......)))))).(((((.......)))))..((((..((......)).))))))))))).)) ( -28.70, z-score =  -0.88, R)
>droEre2.scaffold_4845 9500914 89 + 22589142
CCGGCUUUCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
..(((.....)))((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))).... ( -30.10, z-score =  -0.57, R)
>droYak2.chr2R 7265148 89 - 21139217
CCGGCUUUCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
..(((.....)))((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))).... ( -30.10, z-score =  -0.57, R)
>droSec1.super_1 12815036 89 + 14215200
CCAACUUCCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
..........(((((((((((((((.......)))))).(((((.......)))))..((((..((......)).))))))))))).)) ( -29.00, z-score =  -0.96, R)
>droSim1.chr2R 14014613 89 + 19596830
CCGACUUGCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
..........(((((((((((((((.......)))))).(((((.......)))))..((((..((......)).))))))))))).)) ( -29.00, z-score =  -0.29, R)
>anoGam1.chr2L 19798871 80 - 48795086
---------AGAGGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAGCA
---------.(..((((((((((((.......)))))).(((((.......)))))..((((..((......)).))))))))))..). ( -28.90, z-score =  -1.20, R)
>consensus
CCGGCUUUCAGCUGUUUCCGUGGUGUAGCGGUUAUCACAUCUGCCUAACACGCAGAAGGCCCCCGGUUCGAUCCCGGGCGGAAACAUGU
............(((((((((((((.......)))))).(((((.......)))))..((((..((......)).)))))))))))... (-28.35 = -28.43 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 15,302,336 – 15,302,425
Length 89
Sequences 13
Columns 89
Reading direction reverse
Mean pairwise identity 91.93
Shannon entropy 0.19710
G+C content 0.57724
Mean single sequence MFE -30.43
Consensus MFE -29.33
Energy contribution -29.41
Covariance contribution 0.08
Combinations/Pair 1.00
Mean z-score -0.91
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.41
SVM RNA-class probability 0.682512
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15302336 89 - 21146708
UCAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGGAAAUCGG
((.(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))....))...... ( -30.00, z-score =  -0.69, R)
>droGri2.scaffold_15245 13573705 88 - 18325388
UCCUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGAAUGCGA-
..((((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).)))))))))..........- ( -31.90, z-score =  -1.33, R)
>droMoj3.scaffold_6496 15765795 89 - 26866924
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGAAAUGCUG
....((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).)))))))(((......))). ( -31.30, z-score =  -1.63, R)
>droVir3.scaffold_12875 9450944 89 + 20611582
UCAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGUUGAUUCAUGC
((((((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))..)))....... ( -29.90, z-score =  -1.06, R)
>droWil1.scaffold_180708 9060108 89 + 12563649
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUUGUGCGAUG
...(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))((....)).... ( -31.40, z-score =  -1.16, R)
>droPer1.super_2 6081051 89 + 9036312
ACCUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGGAAGCAAG
..((((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).)))))))))........... ( -31.90, z-score =  -1.23, R)
>dp4.chr3 17014135 89 + 19779522
ACCUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGGAAGCAAG
..((((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).)))))))))........... ( -31.90, z-score =  -1.23, R)
>droAna3.scaffold_13266 17922778 89 + 19884421
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGUUGAGGGGAGC
...(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))............ ( -29.70, z-score =  -0.26, R)
>droEre2.scaffold_4845 9500914 89 - 22589142
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGAAAGCCGG
...(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))((.....))... ( -30.20, z-score =  -0.71, R)
>droYak2.chr2R 7265148 89 + 21139217
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGAAAGCCGG
...(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))((.....))... ( -30.20, z-score =  -0.71, R)
>droSec1.super_1 12815036 89 - 14215200
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGGAAGUUGG
...(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))............ ( -29.70, z-score =  -0.45, R)
>droSim1.chr2R 14014613 89 - 19596830
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGCAAGUCGG
...(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))............ ( -29.70, z-score =  -0.38, R)
>anoGam1.chr2L 19798871 80 + 48795086
UGCUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACCUCU---------
....((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).)))))))....--------- ( -27.80, z-score =  -0.92, R)
>consensus
ACAUGUUUCCGCCCGGGAUCGAACCGGGGGCCUUCUGCGUGUUAGGCAGAUGUGAUAACCGCUACACCACGGAAACAGCUGAAAGCCGG
...(((((((((((((.......)))))((......(((.((((.((....))..)))))))....)).))))))))............ (-29.33 = -29.41 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:34:46 2011