Locus 11582

Sequence ID dm3.chr3R
Location 22,268,921 – 22,269,024
Length 103
Max. P 0.951985
window15912 window15913

overview

Window 2

Location 22,268,921 – 22,269,024
Length 103
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 69.23
Shannon entropy 0.58058
G+C content 0.36218
Mean single sequence MFE -18.37
Consensus MFE -6.20
Energy contribution -6.62
Covariance contribution 0.42
Combinations/Pair 1.28
Mean z-score -2.04
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.70
SVM RNA-class probability 0.791715
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22268921 103 + 27905053
AGACUAUAGGUGACUAUGUAUAUAGUAUCGGCAACAAAGUCGAAGCCGAAUGAAAGAUUU-UGACGCUUUCC---ACAAAAAGCAAAUUAAGAAUCACAAAUCGAGG
....(((((....))))).........(((((..(......)..)))))......(((((-(...(((((..---....)))))......))))))........... ( -20.00, z-score =  -1.50, R)
>droSim1.chr3R 22107884 103 + 27517382
AGACUAUAGGCGACUAUGUAUAUAGUAUCGGCAACAAAGUCGAAGCCGAAUGAAAGAUUU-UGACGCUUUCC---ACAAAAAGCAAAUUAAGAAUCACAAAUCGAGG
........(((.(((((....))))).(((((......))))).)))........(((((-(...(((((..---....)))))......))))))........... ( -20.10, z-score =  -1.53, R)
>droSec1.super_13 1060297 103 + 2104621
AGACUAUAGGCGACUAUGUAUAUAGUAUCGGCAACAAAGUCGAAGCCGAAUGAAAGAUUU-UGACGCUUUCC---ACAAAAAGCAAAUUAAGAAUCACAAAUCGAGG
........(((.(((((....))))).(((((......))))).)))........(((((-(...(((((..---....)))))......))))))........... ( -20.10, z-score =  -1.53, R)
>droYak2.chr3R 4612338 95 - 28832112
--------GACUAUAUAGCAUAUAGUAUCGGCAACAAAGUCGAAGCCGAUUGAAAGAUUU-UGACGCUUUCC---ACAAAAAGCAAAUUAAGAAUCACAAAUCGAGG
--------.(((((((...))))))).(((((......)))))...(((((....(((((-(...(((((..---....)))))......))))))...)))))... ( -19.80, z-score =  -2.74, R)
>droWil1.scaffold_181130 7128788 99 + 16660200
-------AAACAACACCAAGCGAUACAACAAGAAAAAAAUCGUU-CAAAUGAACAAUUUUUUGACGCUUUUCCACACAAAAAGCAAAUUAAAAAUCACAAAUCGAAA
-------.............((((.........(((((((.(((-(....)))).)))))))...((((((.......))))))................))))... ( -14.30, z-score =  -3.39, R)
>droVir3.scaffold_13047 4810320 83 + 19223366
---------------------ACGACAGUCGCAUUAAGUCCAAGAAGAAGCAGCAGAUUUCUGAUGCUUUCC---ACAAAAAGCAAAUAAGGAAUCAGAAAUCGAAA
---------------------.(((...((((......((......))....)).(((((((..((((((..---....))))))....))))))).))..)))... ( -15.90, z-score =  -1.53, R)
>consensus
_______AGGCGACUAUGUAUAUAGUAUCGGCAACAAAGUCGAAGCCGAAUGAAAGAUUU_UGACGCUUUCC___ACAAAAAGCAAAUUAAGAAUCACAAAUCGAGG
...........................(((((......)))))............(((((.(((.(((((.........)))))...))).)))))........... ( -6.20 =  -6.62 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 22,268,921 – 22,269,024
Length 103
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 69.23
Shannon entropy 0.58058
G+C content 0.36218
Mean single sequence MFE -19.42
Consensus MFE -11.38
Energy contribution -11.17
Covariance contribution -0.22
Combinations/Pair 1.38
Mean z-score -1.30
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.58
SVM RNA-class probability 0.951985
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22268921 103 - 27905053
CCUCGAUUUGUGAUUCUUAAUUUGCUUUUUGU---GGAAAGCGUCA-AAAUCUUUCAUUCGGCUUCGACUUUGUUGCCGAUACUAUAUACAUAGUCACCUAUAGUCU
....((((.((((((........((((((...---.))))))....-...........(((((..((....))..)))))............))))))....)))). ( -19.10, z-score =  -1.00, R)
>droSim1.chr3R 22107884 103 - 27517382
CCUCGAUUUGUGAUUCUUAAUUUGCUUUUUGU---GGAAAGCGUCA-AAAUCUUUCAUUCGGCUUCGACUUUGUUGCCGAUACUAUAUACAUAGUCGCCUAUAGUCU
....(((((.((((.(((..((..(.....).---.))))).))))-)))))......(((((..((....))..))))).((((((..(......)..)))))).. ( -19.10, z-score =  -0.66, R)
>droSec1.super_13 1060297 103 - 2104621
CCUCGAUUUGUGAUUCUUAAUUUGCUUUUUGU---GGAAAGCGUCA-AAAUCUUUCAUUCGGCUUCGACUUUGUUGCCGAUACUAUAUACAUAGUCGCCUAUAGUCU
....(((((.((((.(((..((..(.....).---.))))).))))-)))))......(((((..((....))..))))).((((((..(......)..)))))).. ( -19.10, z-score =  -0.66, R)
>droYak2.chr3R 4612338 95 + 28832112
CCUCGAUUUGUGAUUCUUAAUUUGCUUUUUGU---GGAAAGCGUCA-AAAUCUUUCAAUCGGCUUCGACUUUGUUGCCGAUACUAUAUGCUAUAUAGUC--------
....(((((.((((.(((..((..(.....).---.))))).))))-))))).....((((((..((....))..))))))(((((((...))))))).-------- ( -20.80, z-score =  -2.04, R)
>droWil1.scaffold_181130 7128788 99 - 16660200
UUUCGAUUUGUGAUUUUUAAUUUGCUUUUUGUGUGGAAAAGCGUCAAAAAAUUGUUCAUUUG-AACGAUUUUUUUCUUGUUGUAUCGCUUGGUGUUGUUU-------
...((((..(((((...((((..(((((((.....)))))))...((((((((((((....)-)))))))))))....)))).))))).....))))...------- ( -20.80, z-score =  -2.17, R)
>droVir3.scaffold_13047 4810320 83 - 19223366
UUUCGAUUUCUGAUUCCUUAUUUGCUUUUUGU---GGAAAGCAUCAGAAAUCUGCUGCUUCUUCUUGGACUUAAUGCGACUGUCGU---------------------
....((((((((((..(((.((..(.....).---.))))).))))))))))...............(((...........)))..--------------------- ( -17.60, z-score =  -1.28, R)
>consensus
CCUCGAUUUGUGAUUCUUAAUUUGCUUUUUGU___GGAAAGCGUCA_AAAUCUUUCAUUCGGCUUCGACUUUGUUGCCGAUACUAUAUACAUAGUCGCCU_______
....(((((.((((.........(((((((.....))))))))))).)))))......(((((............)))))........................... (-11.38 = -11.17 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:45:39 2011