Locus 8146

Sequence ID dm3.chr3L
Location 20,578,419 – 20,578,539
Length 120
Max. P 0.759579
window11207 window11208

overview

Window 7

Location 20,578,419 – 20,578,517
Length 98
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 67.41
Shannon entropy 0.58288
G+C content 0.33571
Mean single sequence MFE -10.58
Consensus MFE -5.46
Energy contribution -4.85
Covariance contribution -0.61
Combinations/Pair 1.70
Mean z-score -1.06
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.61
SVM RNA-class probability 0.759579
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20578419 98 - 24543557
AUCUUGAACCAUAAACUGAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCGAUUGCCUAUAAAAAACGAUUUCCUACAAUUAUCCCAG----------
................((((..((((((((.....((......))..))))))))..)))).....................................---------- ( -12.30, z-score =  -1.21, R)
>droEre2.scaffold_4784 20273096 94 - 25762168
---CUGAACAAUAAAAAACGCUAGAAUGUA-UCCAUGACUAACCAGUUGCAUUCUAAUUCAAUCGCCCAUAAAAAUCUAUUUCCUACAAUUAUCGCAA----------
---..................(((((((((-....((......))..)))))))))..........................................---------- (  -9.40, z-score =  -1.23, R)
>droYak2.chr3L 4225085 94 + 24197627
---CUGAACAAUAAAAUAAGCUCGAAUGUA-UCCAUGACUAACCAGUUACAUUCUAAUUCAAUUGCCCAUAAAAAUAUAUUUCCUACAAUUAUACCAG----------
---(((.................(((((((-....((......))..)))))))......(((((.....................)))))....)))---------- (  -7.40, z-score =  -0.83, R)
>droSec1.super_11 468704 98 - 2888827
AUCCAGAACCAUAAACUGAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCAAUUGCCUAUAAAAAACGAUUUCCUACAAUUAUCCCAG----------
................((((..((((((((.....((......))..))))))))..)))).....................................---------- ( -13.00, z-score =  -2.01, R)
>droSim1.chr3L 19930390 98 - 22553184
AUCCAGAACCAUAAACUGAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCAAUUGCCUAUAAAAAACGAUUUCCUACAAUUAUCCCAG----------
................((((..((((((((.....((......))..))))))))..)))).....................................---------- ( -13.00, z-score =  -2.01, R)
>droVir3.scaffold_13049 6465612 107 + 25233164
AUCCUAAA-AAUAAAAUAAAUAUGAAUACGCCUCCCAAAUUAUAAAAUGUGUCUAGAGAGCAAUAUUUAUUCAGCUACAGAGUUCGCAGCUAUUUUCCCUUUCGCCCG
........-.....(((((((((......(((((....((........)).....))).)).))))))))).((((...(....)..))))................. (  -8.40, z-score =   0.94, R)
>consensus
AUCCUGAACAAUAAAAUAAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCAAUUGCCUAUAAAAAACGAUUUCCUACAAUUAUCCCAG__________
......................((((((((.....((......))..))))))))..................................................... ( -5.46 =  -4.85 +  -0.61)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,578,441 – 20,578,539
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 76.13
Shannon entropy 0.38717
G+C content 0.32216
Mean single sequence MFE -11.70
Consensus MFE -8.62
Energy contribution -9.10
Covariance contribution 0.48
Combinations/Pair 1.21
Mean z-score -1.10
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.629516
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20578441 98 - 24543557
CUUCUAGUACUACAGUUUAAAAAUCUUGAACCAUAAACUGAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCGAUUGCCUAUAAAAAA
......(((.....((((((.....)))))).......((((..((((((((.....((......))..))))))))..))))..))).......... ( -14.60, z-score =  -0.97, R)
>droEre2.scaffold_4784 20273118 82 - 25762168
---------------CUAGUACUACCUGAACAAUAAAAAACGCUAGAAUGUA-UCCAUGACUAACCAGUUGCAUUCUAAUUCAAUCGCCCAUAAAAAU
---------------............................(((((((((-....((......))..))))))))).................... (  -9.40, z-score =  -1.75, R)
>droYak2.chr3L 4225107 84 + 24197627
-------------AUCGUGUACUACCUGAACAAUAAAAUAAGCUCGAAUGUA-UCCAUGACUAACCAGUUACAUUCUAAUUCAAUUGCCCAUAAAAAU
-------------....(((.(.....).))).............(((((((-....((......))..)))))))...................... (  -7.20, z-score =  -0.39, R)
>droSec1.super_11 468726 95 - 2888827
---CUAGUACUACAGUUUAAAAAUCCAGAACCAUAAACUGAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCAAUUGCCUAUAAAAAA
---...(((....((((((..............))))))(((..((((((((.....((......))..))))))))..)))...))).......... ( -13.64, z-score =  -1.20, R)
>droSim1.chr3L 19930412 95 - 22553184
---CUAGUACUACAGUUUAAAAAUCCAGAACCAUAAACUGAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCAAUUGCCUAUAAAAAA
---...(((....((((((..............))))))(((..((((((((.....((......))..))))))))..)))...))).......... ( -13.64, z-score =  -1.20, R)
>consensus
___CUAGUACUACAGUUUAAAAAUCCUGAACCAUAAACUGAGCUAGAAUGUAUUUCAUGAGCAACCAGUUACAUUCUUACUCAAUUGCCUAUAAAAAA
......................................((((..((((((((.....((......))..))))))))..))))............... ( -8.62 =  -9.10 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:40:17 2011