Locus 11784

Sequence ID dm3.chr3R
Location 23,807,240 – 23,807,302
Length 62
Max. P 0.995349
window16195 window16196

overview

Window 5

Location 23,807,240 – 23,807,302
Length 62
Sequences 6
Columns 77
Reading direction forward
Mean pairwise identity 70.74
Shannon entropy 0.50236
G+C content 0.36410
Mean single sequence MFE -13.42
Consensus MFE -6.99
Energy contribution -7.05
Covariance contribution 0.06
Combinations/Pair 1.40
Mean z-score -1.74
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.17
SVM RNA-class probability 0.903023
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23807240 62 + 27905053
UAAAGAACAUAGCUGAAA---CUC-----------CAAUUUAUCUGUAGCAAU-GUACCUGUCACAAAUAUGUGCCA
......((((.((((...---...-----------...........)))).))-))....(.((((....)))).). (  -6.93, z-score =   0.11, R)
>droEre2.scaffold_4820 6232347 76 - 10470090
UAAAGAACAUAGCAGAAACGGUCCAAAAAUUUAUCCAAUUUAUCUGUGGCAAC-GUAGCUGCCACAAAUAUCUGCCG
...........(((((...((.............))....(((.(((((((..-.....))))))).)))))))).. ( -17.82, z-score =  -3.06, R)
>droYak2.chr3R 6139666 74 - 28832112
UAAAGAACAUGGCAGAAACGGUUCAAAAACUU---CAAUUUAUCUGUGGCAACUGUGGCUGCCACAAAUAUCUGCCG
..........((((((...((((....)))).---.....(((.(((((((.(....).))))))).))))))))). ( -22.00, z-score =  -3.59, R)
>droSec1.super_22 429650 62 + 1066717
UAAAGAACAUAGCGGAAA---UUC-----------CAAUUUAUCUGUGGCAAU-GUACCUGCCACAAAUAUGUCCCA
......(((((..((...---..)-----------)........(((((((..-.....)))))))..))))).... ( -14.60, z-score =  -2.51, R)
>droSim1.chr3R 23509335 62 + 27517382
UAAAGAACAUAGCAGAAA---UUC-----------CAAUUUAUCUGUGGCAAU-GUACCUGCCACAAAUAUGUGCCA
......((((((((((.(---...-----------.....).)))))((((..-.....)))).....))))).... ( -11.70, z-score =  -1.20, R)
>droVir3.scaffold_13047 6833566 62 + 19223366
UAAAGAACAAGGCUGAUA---UUCA-----------UAUUUGUUUUU-GUUUUGUUACCGUUCAUGUAAGUUUAUAA
.....((((((((.((((---....-----------....))))...-))))))))..................... (  -7.50, z-score =  -0.18, R)
>consensus
UAAAGAACAUAGCAGAAA___UUC___________CAAUUUAUCUGUGGCAAU_GUACCUGCCACAAAUAUGUGCCA
........................................(((.(((((((........))))))).)))....... ( -6.99 =  -7.05 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 23,807,240 – 23,807,302
Length 62
Sequences 6
Columns 77
Reading direction reverse
Mean pairwise identity 70.74
Shannon entropy 0.50236
G+C content 0.36410
Mean single sequence MFE -18.05
Consensus MFE -9.69
Energy contribution -11.42
Covariance contribution 1.72
Combinations/Pair 1.08
Mean z-score -2.58
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.79
SVM RNA-class probability 0.995349
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23807240 62 - 27905053
UGGCACAUAUUUGUGACAGGUAC-AUUGCUACAGAUAAAUUG-----------GAG---UUUCAGCUAUGUUCUUUA
((((...((((((((.(((....-.))).))))))))...((-----------(..---..)))))))......... (  -9.80, z-score =   0.39, R)
>droEre2.scaffold_4820 6232347 76 + 10470090
CGGCAGAUAUUUGUGGCAGCUAC-GUUGCCACAGAUAAAUUGGAUAAAUUUUUGGACCGUUUCUGCUAUGUUCUUUA
.(((((((((((((((((((...-)))))))))))))..(..((......))..)......)))))).......... ( -26.30, z-score =  -4.28, R)
>droYak2.chr3R 6139666 74 + 28832112
CGGCAGAUAUUUGUGGCAGCCACAGUUGCCACAGAUAAAUUG---AAGUUUUUGAACCGUUUCUGCCAUGUUCUUUA
.(((((((((((((((((((....))))))))))))).....---..(((....)))....)))))).......... ( -28.60, z-score =  -5.33, R)
>droSec1.super_22 429650 62 - 1066717
UGGGACAUAUUUGUGGCAGGUAC-AUUGCCACAGAUAAAUUG-----------GAA---UUUCCGCUAUGUUCUUUA
.((((((((((((((((((....-.))))))))))))....(-----------(..---...))....))))))... ( -22.30, z-score =  -4.20, R)
>droSim1.chr3R 23509335 62 - 27517382
UGGCACAUAUUUGUGGCAGGUAC-AUUGCCACAGAUAAAUUG-----------GAA---UUUCUGCUAUGUUCUUUA
((((...((((((((((((....-.))))))))))))....(-----------(..---...))))))......... ( -18.70, z-score =  -2.78, R)
>droVir3.scaffold_13047 6833566 62 - 19223366
UUAUAAACUUACAUGAACGGUAACAAAAC-AAAAACAAAUA-----------UGAA---UAUCAGCCUUGUUCUUUA
..............(((((((........-...........-----------....---.....)))..)))).... (  -2.59, z-score =   0.70, R)
>consensus
UGGCACAUAUUUGUGGCAGGUAC_AUUGCCACAGAUAAAUUG___________GAA___UUUCUGCUAUGUUCUUUA
.......((((((((((((......))))))))))))........................................ ( -9.69 = -11.42 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:49:35 2011