Locus 10677

Sequence ID dm3.chr3R
Location 15,579,088 – 15,579,179
Length 91
Max. P 0.997137
window14676 window14677

overview

Window 6

Location 15,579,088 – 15,579,179
Length 91
Sequences 12
Columns 103
Reading direction forward
Mean pairwise identity 73.59
Shannon entropy 0.58433
G+C content 0.41847
Mean single sequence MFE -29.52
Consensus MFE -7.85
Energy contribution -8.02
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.57
Structure conservation index 0.27
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.92
SVM RNA-class probability 0.853800
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15579088 91 + 27905053
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUCAGAGUCAGCAGCUAUAGUAUGUG-ACUU---UGCCUGGGCUUUUGA-------
-.........((((.(((((.........))))).))))(((((.(((.((((((((.((((....)).))))-))))---))))).)))))....------- ( -28.70, z-score =  -2.75, R)
>droSec1.super_25 621558 91 - 827797
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUCAGAGUCAGCAGCUAUAGUAUGUG-ACUU---UGCCUGGGCUUUUGA-------
-.........((((.(((((.........))))).))))(((((.(((.((((((((.((((....)).))))-))))---))))).)))))....------- ( -28.70, z-score =  -2.75, R)
>droSim1.chr3R 21611768 91 - 27517382
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUCAGAGUCAGCAGCUAUAGUAUGUG-ACUU---UGCCUGGGCUUUUGA-------
-.........((((.(((((.........))))).))))(((((.(((.((((((((.((((....)).))))-))))---))))).)))))....------- ( -28.70, z-score =  -2.75, R)
>droYak2.chr3R 4342037 86 + 28832112
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUCAGAGUCAGC-------AGCUAUG--------UGACUUUGCCUGGGCUUUUGA-
-.........((((.(((((.........))))).))))(((((.(((.((((((((.(-------(....))--------))))))))))).)))))....- ( -28.80, z-score =  -3.01, R)
>droEre2.scaffold_4770 11666153 86 - 17746568
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUCAGAGUCAGC-------AGCUAUG--------UGACUUUGCCUGGGCUUUUGA-
-.........((((.(((((.........))))).))))(((((.(((.((((((((.(-------(....))--------))))))))))).)))))....- ( -28.80, z-score =  -3.01, R)
>droAna3.scaffold_13340 2160140 89 + 23697760
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUUGGAGUCAGCUUCUACAU-AUAUG-ACUU---UGCCUUGGCUUUGA--------
-.........((((.(((((.........))))).))))(((((((((.(..(((((..........-...))-))).---.))))))))))...-------- ( -25.52, z-score =  -2.72, R)
>dp4.chr2 30100613 103 + 30794189
AUUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGCCAGAGUCAGCAGAAAAUACGCAUCCAUCUAUGUGACUUUGGUUUCUUCUUCUGA
..........((((.(((((.........))))).))))(((..(((((((((((((.((...................)))))))))))))))..))).... ( -26.11, z-score =  -1.57, R)
>droPer1.super_6 5479790 103 + 6141320
AUUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGCCAGAGUCAGCAGAAAAUACGCAUCCAUCUAUGUGACUUUGGUUUCUUCUUCUGA
..........((((.(((((.........))))).))))(((..(((((((((((((.((...................)))))))))))))))..))).... ( -26.11, z-score =  -1.57, R)
>droWil1.scaffold_181108 465865 97 - 4707319
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUCGACUCAAGUCGAGGUCAGAGUCAGAGUUGAUAA-AAAUG-AUAA---UGACUUUGCCUGGGCUAAGUGA
-.....(((((((....((((....)))).)))))))...((((.(((.((((((((..(((.....-....)-))..---))))))))))).))))...... ( -25.60, z-score =  -1.93, R)
>droMoj3.scaffold_6540 8758164 98 - 34148556
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGCCGAGGACAGAGCCGGCCAGCGCACCUUUUGUGGCU---GGGCUUUGUCGAGGCUUCUGA-
-.........((((.(((((.........))))).))))(((((...(((((((((...((((.(((.....))))))---))))))))))..)))))....- ( -36.30, z-score =  -2.29, R)
>droVir3.scaffold_12855 7240142 92 + 10161210
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGCCGAGGACAGAGUCAGC------AGCAAUUGUGACC---UGGCUUUGCCUGGGCUUCAGA-
-.........((((.(((((.........))))).))))(((((.(((.(((((((((.------.((....))...)---))))))))))).)))))....- ( -33.80, z-score =  -3.23, R)
>droGri2.scaffold_15074 2142456 92 - 7742996
-UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGCCGAGGACAGAGCCAGC------AGCUGUUGUGGCU---UGGCUUUGCCUGGGCUUCUGA-
-.........((((.(((((.........))))).))))(((((.(((.((((((((((------.((....)).)).---))))))))))).)))))....- ( -37.10, z-score =  -3.23, R)
>consensus
_UUUUUGUCGGAGCAUAAAUUUUGGAAUUAUUUACGCUCAAGUCGAGGUCAGAGUCAGCAG__A_AACAUAUG_ACCU___UGACUUUGCCUUGGCUU__GA_
..(((((...((((.(((((.........))))).))))....)))))....................................................... ( -7.85 =  -8.02 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 15,579,088 – 15,579,179
Length 91
Sequences 12
Columns 103
Reading direction reverse
Mean pairwise identity 73.59
Shannon entropy 0.58433
G+C content 0.41847
Mean single sequence MFE -22.83
Consensus MFE -9.79
Energy contribution -9.88
Covariance contribution 0.09
Combinations/Pair 1.08
Mean z-score -2.81
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.04
SVM RNA-class probability 0.997137
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15579088 91 - 27905053
-------UCAAAAGCCCAGGCA---AAGU-CACAUACUAUAGCUGCUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-------....(((.(.(((((---.(((-((((.........)).))))).)).))).).)))((((((((((.........)))))))))).........- ( -20.40, z-score =  -3.09, R)
>droSec1.super_25 621558 91 + 827797
-------UCAAAAGCCCAGGCA---AAGU-CACAUACUAUAGCUGCUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-------....(((.(.(((((---.(((-((((.........)).))))).)).))).).)))((((((((((.........)))))))))).........- ( -20.40, z-score =  -3.09, R)
>droSim1.chr3R 21611768 91 + 27517382
-------UCAAAAGCCCAGGCA---AAGU-CACAUACUAUAGCUGCUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-------....(((.(.(((((---.(((-((((.........)).))))).)).))).).)))((((((((((.........)))))))))).........- ( -20.40, z-score =  -3.09, R)
>droYak2.chr3R 4342037 86 - 28832112
-UCAAAAGCCCAGGCAAAGUCA--------CAUAGCU-------GCUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-....(((.(.(((((.(((((--------((....)-------).))))).)).))).).)))((((((((((.........)))))))))).........- ( -21.20, z-score =  -3.32, R)
>droEre2.scaffold_4770 11666153 86 + 17746568
-UCAAAAGCCCAGGCAAAGUCA--------CAUAGCU-------GCUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-....(((.(.(((((.(((((--------((....)-------).))))).)).))).).)))((((((((((.........)))))))))).........- ( -21.20, z-score =  -3.32, R)
>droAna3.scaffold_13340 2160140 89 - 23697760
--------UCAAAGCCAAGGCA---AAGU-CAUAU-AUGUAGAAGCUGACUCCAACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
--------.....((....)).---..((-(....-......(((.(((........))).)))((((((((((.........)))))))))).))).....- ( -17.20, z-score =  -2.32, R)
>dp4.chr2 30100613 103 - 30794189
UCAGAAGAAGAAACCAAAGUCACAUAGAUGGAUGCGUAUUUUCUGCUGACUCUGGCCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAAU
....(((..((..(((.(((((((.(((((......)))))..)).))))).)))..))..)))((((((((((.........)))))))))).......... ( -23.00, z-score =  -1.84, R)
>droPer1.super_6 5479790 103 - 6141320
UCAGAAGAAGAAACCAAAGUCACAUAGAUGGAUGCGUAUUUUCUGCUGACUCUGGCCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAAU
....(((..((..(((.(((((((.(((((......)))))..)).))))).)))..))..)))((((((((((.........)))))))))).......... ( -23.00, z-score =  -1.84, R)
>droWil1.scaffold_181108 465865 97 + 4707319
UCACUUAGCCCAGGCAAAGUCA---UUAU-CAUUU-UUAUCAACUCUGACUCUGACCUCGACUUGAGUCGAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
......(((...((((.(((((---....-.....-..........))))).)).))(((((....)))))..................)))..........- ( -14.01, z-score =  -1.00, R)
>droMoj3.scaffold_6540 8758164 98 + 34148556
-UCAGAAGCCUCGACAAAGCCC---AGCCACAAAAGGUGCGCUGGCCGGCUCUGUCCUCGGCUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-....(((((..((((.(((((---((((((.....))).))))...)))).))))...)))))((((((((((.........)))))))))).........- ( -35.60, z-score =  -4.27, R)
>droVir3.scaffold_12855 7240142 92 - 10161210
-UCUGAAGCCCAGGCAAAGCCA---GGUCACAAUUGCU------GCUGACUCUGUCCUCGGCUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-....(((((.(((......((---(((((((.....)------).)))).))).))).)))))((((((((((.........)))))))))).........- ( -25.50, z-score =  -2.29, R)
>droGri2.scaffold_15074 2142456 92 + 7742996
-UCAGAAGCCCAGGCAAAGCCA---AGCCACAACAGCU------GCUGGCUCUGUCCUCGGCUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA-
-....(((((.(((((.(((((---(((.......)))------..))))).)).))).)))))((((((((((.........)))))))))).........- ( -32.10, z-score =  -4.22, R)
>consensus
_UC__AAGCCAAAGCAAAGUCA___AGGU_CAUAUGCU_U__CUGCUGACUCUGACCUCGACUUGAGCGUAAAUAAUUCCAAAAUUUAUGCUCCGACAAAAA_
.........................................................(((....((((((((((.........)))))))))))))....... ( -9.79 =  -9.88 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:28:25 2011