Locus 4405

Sequence ID dm3.chr2R
Location 12,814,459 – 12,814,578
Length 119
Max. P 0.990810
window6035 window6036

overview

Window 5

Location 12,814,459 – 12,814,578
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 64.63
Shannon entropy 0.60295
G+C content 0.37630
Mean single sequence MFE -28.27
Consensus MFE -13.16
Energy contribution -15.28
Covariance contribution 2.12
Combinations/Pair 1.21
Mean z-score -2.12
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.38
SVM RNA-class probability 0.989756
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12814459 119 + 21146708
CAAAGGGAAUAUUGAUCCUAUCAUGACCUGACCUAAUCUACUUGAGAAAAAGUACCAAGCUGG-CUUAAGAUAUACAUAUAUUUCGUUUGGGUAGGUCAUAGUAAGGUCACUAUUCGAAU
......(((((.(((((.(((.((((((((.(((((.(..((((((....(((.....)))..-))))))((((....))))...).))))))))))))).))).))))).))))).... ( -34.50, z-score =  -3.28, R)
>droSim1.chr2R 11550987 119 + 19596830
-CAAGGGAAUAUUGAUCCUAUCAUGACUUAAACCAAUCCACUUGAGAAAAAGUACCAAGCUGAUCCUAGGAUCCUAUCCUAUUUCGUAUGGGUAGCUCAUAUUAAGAUCAUUAUUCGAAU
-.....(((((.(((((.((..((((.(((.........((((......)))).(((.((.((...((((((...))))))..)))).))).))).))))..)).))))).))))).... ( -26.10, z-score =  -1.22, R)
>droSec1.super_1 10318237 119 + 14215200
-UAAGGGAUUAUUGAUCCUAUCAUGACCUAAACCAAUCCUCUUGAGAAAAAGUACCAAGCUGAUCCUAGGAUCCUAUCCUAUUUCGUAUGGGUAGCUCAUAUUAAGAUCAUUAUUCUAAU
-...(((((...(((((.((..((((.(((..........(((......)))..(((.((.((...((((((...))))))..)))).))).))).))))..)).)))))..)))))... ( -24.20, z-score =  -0.41, R)
>droYak2.chr2R 2484027 99 - 21139217
CAAAUGGAAUACUGAUCUUAUUAUGACCUAACCUAAUCUUAUUAAG---------------AA-CUUAAGAU---CAUAUGCUCA--CAUGGCAGGUCAUAGAAAGGUCAUUAUUCGGUA
...((.(((((.(((((((.(((((((((......((((((.....---------------..-..))))))---.....(((..--...)))))))))))).))))))).))))).)). ( -30.60, z-score =  -4.86, R)
>droEre2.scaffold_4845 9558316 91 - 22589142
CAAAUGGAAUAUUGAUCUCAUCAUGACCCAAUCCAGCU-----------------------GA-CCCGAGAU---CAUAUAGCCG--CCGGGCAGGUCAUGGUAAGGUGAUUAUUCGGAA
......(((((.(.((((.(((((((((.........(-----------------------(.-((((....---..........--.))))))))))))))).)))).).))))).... ( -25.96, z-score =  -0.82, R)
>consensus
CAAAGGGAAUAUUGAUCCUAUCAUGACCUAAACCAAUCCACUUGAGAAAAAGUACCAAGCUGA_CCUAAGAU___CAUAUAUUUCGUAUGGGUAGGUCAUAGUAAGGUCAUUAUUCGAAU
......(((((.(((((.(((.((((((((.(((.......................................................))))))))))).))).))))).))))).... (-13.16 = -15.28 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 12,814,459 – 12,814,578
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 64.63
Shannon entropy 0.60295
G+C content 0.37630
Mean single sequence MFE -29.70
Consensus MFE -13.33
Energy contribution -13.69
Covariance contribution 0.36
Combinations/Pair 1.29
Mean z-score -2.25
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.44
SVM RNA-class probability 0.990810
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12814459 119 - 21146708
AUUCGAAUAGUGACCUUACUAUGACCUACCCAAACGAAAUAUAUGUAUAUCUUAAG-CCAGCUUGGUACUUUUUCUCAAGUAGAUUAGGUCAGGUCAUGAUAGGAUCAAUAUUCCCUUUG
....(((((.(((.((((.((((((((..((....................(((((-....)))))(((((......))))).....))..)))))))).)))).))).)))))...... ( -27.90, z-score =  -2.03, R)
>droSim1.chr2R 11550987 119 - 19596830
AUUCGAAUAAUGAUCUUAAUAUGAGCUACCCAUACGAAAUAGGAUAGGAUCCUAGGAUCAGCUUGGUACUUUUUCUCAAGUGGAUUGGUUUAAGUCAUGAUAGGAUCAAUAUUCCCUUG-
....(((((.((((((((.(((((.(((((.........((((((...)))))).((((.((((((.........)))))).)))))))...))))))).)))))))).))))).....- ( -31.90, z-score =  -1.80, R)
>droSec1.super_1 10318237 119 - 14215200
AUUAGAAUAAUGAUCUUAAUAUGAGCUACCCAUACGAAAUAGGAUAGGAUCCUAGGAUCAGCUUGGUACUUUUUCUCAAGAGGAUUGGUUUAGGUCAUGAUAGGAUCAAUAAUCCCUUA-
....((.((.((((((((.(((((.(((.((........((((((...)))))).((((..(((((.........)))))..))))))..))).))))).)))))))).)).)).....- ( -31.20, z-score =  -1.23, R)
>droYak2.chr2R 2484027 99 + 21139217
UACCGAAUAAUGACCUUUCUAUGACCUGCCAUG--UGAGCAUAUG---AUCUUAAG-UU---------------CUUAAUAAGAUUAGGUUAGGUCAUAAUAAGAUCAGUAUUCCAUUUG
....(((((.(((.(((..((((((((((((((--....))).((---((((((..-..---------------.....)))))))))).)))))))))..))).))).)))))...... ( -29.40, z-score =  -4.60, R)
>droEre2.scaffold_4845 9558316 91 + 22589142
UUCCGAAUAAUCACCUUACCAUGACCUGCCCGG--CGGCUAUAUG---AUCUCGGG-UC-----------------------AGCUGGAUUGGGUCAUGAUGAGAUCAAUAUUCCAUUUG
....(((((.....((((.((((((((..((((--(((((.....---......))-))-----------------------.)))))...)))))))).)))).....)))))...... ( -28.10, z-score =  -1.57, R)
>consensus
AUUCGAAUAAUGACCUUACUAUGACCUACCCAGACGAAAUAUAUG___AUCUUAGG_UCAGCUUGGUACUUUUUCUCAAGAAGAUUGGGUUAGGUCAUGAUAGGAUCAAUAUUCCCUUUG
....(((((.(((.((((.(((((((((..............................................................))))))))).)))).))).)))))...... (-13.33 = -13.69 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:28:32 2011