Locus 11261

Sequence ID dm3.chr3R
Location 19,830,496 – 19,830,597
Length 101
Max. P 0.974207
window15473 window15474

overview

Window 3

Location 19,830,496 – 19,830,597
Length 101
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 84.86
Shannon entropy 0.24676
G+C content 0.43587
Mean single sequence MFE -26.39
Consensus MFE -18.76
Energy contribution -19.40
Covariance contribution 0.64
Combinations/Pair 1.12
Mean z-score -1.73
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.530041
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19830496 101 + 27905053
AAUUCUUGGCCACCCCGUUUGGGGCAUGCUUUUCCCC----GAACUUAAGUAUCUGUGCAAAUGUAU-GUAUAUGCACUCUUU-UUCUUCUAUA----CUAUGGGGAUACA-
............((((((((((((.(.....).))))----))))...(((((..(((((.(((...-.))).))))).....-.......)))----))..)))).....- ( -26.54, z-score =  -1.94, R)
>droSim1.chr3R 19659753 107 + 27517382
AAUUCUUGGCCACCCCGUUUGGGGCAUGCCUUUCCCC----GAACUUAAGUAUCUGUGCAAAUGUAU-GUAUAUGCACUCUAUAUUCUUCUAUACAUACUAUGGGGAUAACA
.......(((..((((....))))...)))..(((((----(.......(((....)))....((((-(((((.................)))))))))..))))))..... ( -28.43, z-score =  -1.96, R)
>droSec1.super_0 20171984 103 + 21120651
AAUUCUUGGCCACCCCGUUUGGGGCAUGCCUUUCCCC----GAACUUAAGUAUCUGUGCAAAUGUAU-GUAUAUGCAGUCUUUAUUCUUCUAUA----CUCUAGGGAUAAAA
.((((((((.......((((((((.(.....).))))----))))....((((..(((((......)-))))))))..................----..)))))))).... ( -22.30, z-score =  -0.49, R)
>droYak2.chr3R 2160934 100 - 28832112
AAUUCUUGGCCACCCCGUUUGGGGCAUGCCUUUCCCGCCCGAUACUUAAGUAUCUGUGCCCCUGUAC---ACAUGCACUCUUU----UUCUAUA----CUAUGCGGAUACA-
.......(((..((((....))))...)))....((((..(((((....))))).((((...((...---.)).)))).....----.......----....)))).....- ( -26.20, z-score =  -2.28, R)
>droEre2.scaffold_4820 2243471 99 - 10470090
AAUUCUUGGCCACCCCGUUUGGGGCAUGCCUUUCCCG----AUACUUAAGUAUCUGUGCCCAUGUACUAUACAUGCACUCUGU----UUCUAUA----CUAUGGGGAUACA-
.......(((..((((....))))...))).((((((----((((....))))).((((..(((((...))))))))).....----.......----....)))))....- ( -28.50, z-score =  -1.97, R)
>consensus
AAUUCUUGGCCACCCCGUUUGGGGCAUGCCUUUCCCC____GAACUUAAGUAUCUGUGCAAAUGUAU_GUAUAUGCACUCUUU_UUCUUCUAUA____CUAUGGGGAUACA_
.......(((..((((....))))...)))...................((((((((((..((((.....))))))))...........(((((.....))))))))))).. (-18.76 = -19.40 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,830,496 – 19,830,597
Length 101
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 84.86
Shannon entropy 0.24676
G+C content 0.43587
Mean single sequence MFE -31.09
Consensus MFE -21.20
Energy contribution -22.52
Covariance contribution 1.32
Combinations/Pair 1.05
Mean z-score -2.86
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.90
SVM RNA-class probability 0.974207
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19830496 101 - 27905053
-UGUAUCCCCAUAG----UAUAGAAGAA-AAAGAGUGCAUAUAC-AUACAUUUGCACAGAUACUUAAGUUC----GGGGAAAAGCAUGCCCCAAACGGGGUGGCCAAGAAUU
-....(((((....----..........-.....(((((.((..-....)).))))).((.((....))))----)))))...((.((((((....))))))))........ ( -26.90, z-score =  -2.36, R)
>droSim1.chr3R 19659753 107 - 27517382
UGUUAUCCCCAUAGUAUGUAUAGAAGAAUAUAGAGUGCAUAUAC-AUACAUUUGCACAGAUACUUAAGUUC----GGGGAAAGGCAUGCCCCAAACGGGGUGGCCAAGAAUU
.....(((((...(((((((((.................)))))-)))).........((.((....))))----)))))..(((.((((((....)))))))))....... ( -33.43, z-score =  -3.30, R)
>droSec1.super_0 20171984 103 - 21120651
UUUUAUCCCUAGAG----UAUAGAAGAAUAAAGACUGCAUAUAC-AUACAUUUGCACAGAUACUUAAGUUC----GGGGAAAGGCAUGCCCCAAACGGGGUGGCCAAGAAUU
.....(((((...(----((((..((........))...)))))-.............((.((....))))----)))))..(((.((((((....)))))))))....... ( -26.10, z-score =  -1.92, R)
>droYak2.chr3R 2160934 100 + 28832112
-UGUAUCCGCAUAG----UAUAGAA----AAAGAGUGCAUGU---GUACAGGGGCACAGAUACUUAAGUAUCGGGCGGGAAAGGCAUGCCCCAAACGGGGUGGCCAAGAAUU
-....(((((....----.......----.....((((.((.---...))...)))).(((((....)))))..)))))...(((.((((((....)))))))))....... ( -35.00, z-score =  -3.35, R)
>droEre2.scaffold_4820 2243471 99 + 10470090
-UGUAUCCCCAUAG----UAUAGAA----ACAGAGUGCAUGUAUAGUACAUGGGCACAGAUACUUAAGUAU----CGGGAAAGGCAUGCCCCAAACGGGGUGGCCAAGAAUU
-....((((.....----.......----.....((.((((((...)))))).))...(((((....))))----)))))..(((.((((((....)))))))))....... ( -34.00, z-score =  -3.36, R)
>consensus
_UGUAUCCCCAUAG____UAUAGAAGAA_AAAGAGUGCAUAUAC_AUACAUUUGCACAGAUACUUAAGUUC____GGGGAAAGGCAUGCCCCAAACGGGGUGGCCAAGAAUU
.....(((((........................(((((.............)))))....((....))......)))))..(((.((((((....)))))))))....... (-21.20 = -22.52 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:39:29 2011