Locus 12329

Sequence ID dm3.chr3R
Location 27,397,602 – 27,397,676
Length 74
Max. P 0.999564
window16948 window16949

overview

Window 8

Location 27,397,602 – 27,397,676
Length 74
Sequences 7
Columns 78
Reading direction forward
Mean pairwise identity 62.19
Shannon entropy 0.77031
G+C content 0.35630
Mean single sequence MFE -14.57
Consensus MFE -8.61
Energy contribution -9.43
Covariance contribution 0.82
Combinations/Pair 1.53
Mean z-score -1.97
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.02
SVM RNA-class probability 0.999564
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27397602 74 + 27905053
AAUCGAUA--AUCUAUCGAUAAAUACAAUCGAACCAGUAAGUGAAUCUCAACUAGUUCCUUUUCA--AUCCAGUGAAG
.(((((((--...)))))))..........((((.(((.((.....))..))).))))...((((--......)))). ( -10.00, z-score =  -1.24, R)
>droSim1.chr3R 27033471 75 + 27517382
UAUCGAUA--CGUUAUCGAUACUAACAAUCGAACCAGUAAGUGAAUCUCAACUGGUUCCGUUUUUA-AUCCACUGCAG
((((((((--...)))))))).(((.(((.((((((((.((.....))..)))))))).))).)))-........... ( -17.50, z-score =  -2.98, R)
>droSec1.super_31 58081 75 + 568655
UAUCGAUA--CAUUAUCGAUACUAACUAUCGAACCAGUAAGUGAAUCUCAACUGGUUCCUUUUUUA-AUCCACUGCAC
((((((((--...)))))))).........((((((((.((.....))..))))))))........-........... ( -16.50, z-score =  -3.66, R)
>droYak2.chr3R 28332679 76 + 28832112
AAUCGAUA--AGUUAUCGAUAUGUAUAAUCGAACCAGUAAGUGAACCACCGCUGGUUCAUUUGGUUUAAUUACUACAG
.(((((((--...))))))).((((((((..((((((...((((((((....))))))))))))))..)))).)))). ( -26.20, z-score =  -5.65, R)
>droEre2.scaffold_4820 9891717 74 - 10470090
AAUCGAUA--AGUUAUCGACGCAUAUAAUCGAACCAGUAAGUGAAUUACCGCUGGUUCAUUUUGU--AUUUACUACAG
..((((((--...))))))...((((((..((((((((..(((...))).))))))))...))))--))......... ( -16.40, z-score =  -2.37, R)
>droPer1.super_19 348833 69 + 1869541
AGUCGAUA--G--UAUCGAUGGCUUUCUUCGAAACGGUUAUUUACUCUC--UUUGCUCUUUUUA---AAACGGUGAGG
....((.(--(--((..((((((((((...)))..))))))))))).))--....(((......---.......))). (  -7.52, z-score =   1.80, R)
>droMoj3.scaffold_6540 26427359 77 - 34148556
AAUCGAAAUUCGAUAUUUAGACAUGCACUUCGAUUAGUAAACAAAUUUAGCUGGAAUUCAUAUUUCAUUCCGCCAUU-
(((((((.....................)))))))..............((.(((((.........)))))))....- (  -7.90, z-score =   0.30, R)
>consensus
AAUCGAUA__AGUUAUCGAUACAUACAAUCGAACCAGUAAGUGAAUCUCAACUGGUUCCUUUUUU__AUCCACUGCAG
.(((((((.....)))))))..........((((((((............)))))))).................... ( -8.61 =  -9.43 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 27,397,602 – 27,397,676
Length 74
Sequences 7
Columns 78
Reading direction reverse
Mean pairwise identity 62.19
Shannon entropy 0.77031
G+C content 0.35630
Mean single sequence MFE -16.61
Consensus MFE -6.79
Energy contribution -8.47
Covariance contribution 1.68
Combinations/Pair 1.29
Mean z-score -1.88
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.63
SVM RNA-class probability 0.993574
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27397602 74 - 27905053
CUUCACUGGAU--UGAAAAGGAACUAGUUGAGAUUCACUUACUGGUUCGAUUGUAUUUAUCGAUAGAU--UAUCGAUU
.((((......--))))...((((((((.(((.....)))))))))))..........(((((((...--))))))). ( -15.60, z-score =  -1.01, R)
>droSim1.chr3R 27033471 75 - 27517382
CUGCAGUGGAU-UAAAAACGGAACCAGUUGAGAUUCACUUACUGGUUCGAUUGUUAGUAUCGAUAACG--UAUCGAUA
.........((-(((.....((((((((.(((.....))))))))))).....)))))(((((((...--))))))). ( -18.90, z-score =  -1.70, R)
>droSec1.super_31 58081 75 - 568655
GUGCAGUGGAU-UAAAAAAGGAACCAGUUGAGAUUCACUUACUGGUUCGAUAGUUAGUAUCGAUAAUG--UAUCGAUA
.........((-(((.....((((((((.(((.....))))))))))).....)))))(((((((...--))))))). ( -18.90, z-score =  -2.29, R)
>droYak2.chr3R 28332679 76 - 28832112
CUGUAGUAAUUAAACCAAAUGAACCAGCGGUGGUUCACUUACUGGUUCGAUUAUACAUAUCGAUAACU--UAUCGAUU
.((((.((((..(((((..(((((((....))))))).....)))))..)))))))).(((((((...--))))))). ( -22.20, z-score =  -4.02, R)
>droEre2.scaffold_4820 9891717 74 + 10470090
CUGUAGUAAAU--ACAAAAUGAACCAGCGGUAAUUCACUUACUGGUUCGAUUAUAUGCGUCGAUAACU--UAUCGAUU
.((((.....)--)))...((((((((.(((.....)))..)))))))).........(((((((...--))))))). ( -16.90, z-score =  -2.27, R)
>droPer1.super_19 348833 69 - 1869541
CCUCACCGUUU---UAAAAAGAGCAAA--GAGAGUAAAUAACCGUUUCGAAGAAAGCCAUCGAUA--C--UAUCGACU
.(((...((((---(....)))))...--)))(((..(((...((.((((.(.....).)))).)--)--)))..))) (  -8.10, z-score =  -0.30, R)
>droMoj3.scaffold_6540 26427359 77 + 34148556
-AAUGGCGGAAUGAAAUAUGAAUUCCAGCUAAAUUUGUUUACUAAUCGAAGUGCAUGUCUAAAUAUCGAAUUUCGAUU
-..(((((((((.........))))).))))............(((((((((..((((....))))...))))))))) ( -15.70, z-score =  -1.58, R)
>consensus
CUGCAGUGGAU__AAAAAAGGAACCAGUUGAGAUUCACUUACUGGUUCGAUUGUAUGUAUCGAUAACG__UAUCGAUU
....................(((((((..............)))))))..........(((((((.....))))))). ( -6.79 =  -8.47 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:00:04 2011