Locus 4102

Sequence ID dm3.chr2R
Location 10,437,227 – 10,437,318
Length 91
Max. P 0.781096
window5627 window5628

overview

Window 7

Location 10,437,227 – 10,437,318
Length 91
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 72.18
Shannon entropy 0.50041
G+C content 0.47707
Mean single sequence MFE -18.52
Consensus MFE -7.99
Energy contribution -8.77
Covariance contribution 0.78
Combinations/Pair 1.35
Mean z-score -1.91
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.781096
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10437227 91 + 21146708
--CCCGCGGACCCAGCAGAUACUAGAUAUUCCAGAUAUAUAUACAUAUACCCACAUUCUGUUCGCACACUAAAAGAAAAAA-GCAGGGCCCGCA
--...((((.(((((((((..((.(.....).)).(((((....))))).......)))))).((................-)).))).)))). ( -18.69, z-score =  -2.49, R)
>droSim1.chr2R 9194938 84 + 19596830
--CCCGCGAACCCGGCAGAUACUAGAUAUUCCAGAUAUAUAC--------CCACAUUCUGUUCGCACACUAAAAGAAAAAAAGCAGGGCCCGCA
--...(((..(((((((((......((((.......))))..--------......)))))).((.................)).)))..))). ( -15.07, z-score =  -1.06, R)
>droSec1.super_1 7951126 84 + 14215200
--CCCGCGGACCCGGCAGAUACUAGAUAUUCCAGAUAUAUAC--------CCACAUUCUGUUCGCACACUAAAAGAAAAAAAGCAGGGCCCGCA
--...((((.(((((((((......((((.......))))..--------......)))))).((.................)).))).)))). ( -18.87, z-score =  -1.76, R)
>droYak2.chr2R 10365595 82 + 21139217
--CCGGCGGCCCCACCAGCUACUAGAUAUUCCAGAUAUAUAU--------CCCCAUUCUGUUCGCACACUAAAAGAAAAA--GCAGGGCCCGCA
--...((((.(((..(((......(((((.........))))--------)......)))...((...............--)).))).)))). ( -16.96, z-score =  -0.62, R)
>droEre2.scaffold_4845 7172456 81 - 22589142
--CCCGCGGCCC-ACCAGAUACUAGAUAUUCCAGAUAUAUAA--------GCCCAUUCUGUUCGCACACUAAAAGAAAAA--GCAGGGCCCGCA
--...(((((((-..((((......((((.......))))..--------......))))...((...............--)).))).)))). ( -17.00, z-score =  -1.45, R)
>droWil1.scaffold_180701 1006299 77 + 3904529
AGUGCGUGUGUCUCUC---UCUCACAUUCUCUUUAUGUGUAU--------GUGUGUGUGUGUGGGAAAGUGAGAGAAAGA--GGAAAACC----
.....((...((((((---((((((.(((((..((((..((.--------...))..)))).))))).))))))))..))--))...)).---- ( -24.50, z-score =  -4.10, R)
>consensus
__CCCGCGGACCCAGCAGAUACUAGAUAUUCCAGAUAUAUAU________CCACAUUCUGUUCGCACACUAAAAGAAAAA__GCAGGGCCCGCA
.....((((.(((.((.........((((.......))))...............((((..............)))).....)).))).)))). ( -7.99 =  -8.77 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,437,227 – 10,437,318
Length 91
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 72.18
Shannon entropy 0.50041
G+C content 0.47707
Mean single sequence MFE -24.77
Consensus MFE -11.86
Energy contribution -12.62
Covariance contribution 0.75
Combinations/Pair 1.47
Mean z-score -1.58
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.48
SVM RNA-class probability 0.712528
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 10437227 91 - 21146708
UGCGGGCCCUGC-UUUUUUCUUUUAGUGUGCGAACAGAAUGUGGGUAUAUGUAUAUAUAUCUGGAAUAUCUAGUAUCUGCUGGGUCCGCGGG--
.((((((((.((-............((((((..((.....))..))))))..........((((.....)))).....)).))))))))...-- ( -28.90, z-score =  -1.98, R)
>droSim1.chr2R 9194938 84 - 19596830
UGCGGGCCCUGCUUUUUUUCUUUUAGUGUGCGAACAGAAUGUGG--------GUAUAUAUCUGGAAUAUCUAGUAUCUGCCGGGUUCGCGGG--
.((((((((.((.............((((((..((.....))..--------))))))..((((.....)))).....)).))))))))...-- ( -26.10, z-score =  -1.59, R)
>droSec1.super_1 7951126 84 - 14215200
UGCGGGCCCUGCUUUUUUUCUUUUAGUGUGCGAACAGAAUGUGG--------GUAUAUAUCUGGAAUAUCUAGUAUCUGCCGGGUCCGCGGG--
.((((((((.((.............((((((..((.....))..--------))))))..((((.....)))).....)).))))))))...-- ( -28.90, z-score =  -2.16, R)
>droYak2.chr2R 10365595 82 - 21139217
UGCGGGCCCUGC--UUUUUCUUUUAGUGUGCGAACAGAAUGGGG--------AUAUAUAUCUGGAAUAUCUAGUAGCUGGUGGGGCCGCCGG--
.((((.(((..(--(....((.(((((((.....(((((((...--------...))).))))..))).)))).))..))..)))))))...-- ( -23.90, z-score =   0.12, R)
>droEre2.scaffold_4845 7172456 81 + 22589142
UGCGGGCCCUGC--UUUUUCUUUUAGUGUGCGAACAGAAUGGGC--------UUAUAUAUCUGGAAUAUCUAGUAUCUGGU-GGGCCGCGGG--
.((((.(((.((--(..((((.((.(....).)).))))..)))--------(((.(((.((((.....))))))).))).-)))))))...-- ( -22.20, z-score =   0.05, R)
>droWil1.scaffold_180701 1006299 77 - 3904529
----GGUUUUCC--UCUUUCUCUCACUUUCCCACACACACACAC--------AUACACAUAAAGAGAAUGUGAGA---GAGAGACACACGCACU
----((....))--((((((((((((.(((.(............--------...........).))).))))))---)))))).......... ( -18.60, z-score =  -3.95, R)
>consensus
UGCGGGCCCUGC__UUUUUCUUUUAGUGUGCGAACAGAAUGUGG________AUAUAUAUCUGGAAUAUCUAGUAUCUGCUGGGUCCGCGGG__
.((((((((.................(((....)))........................((((.....))))........))))))))..... (-11.86 = -12.62 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:22:51 2011