Locus 2716

Sequence ID dm3.chr2L
Location 21,490,339 – 21,490,412
Length 73
Max. P 0.999880
window3727 window3728

overview

Window 7

Location 21,490,339 – 21,490,412
Length 73
Sequences 10
Columns 81
Reading direction forward
Mean pairwise identity 62.29
Shannon entropy 0.77945
G+C content 0.32034
Mean single sequence MFE -12.63
Consensus MFE -9.80
Energy contribution -9.80
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.37
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.39
SVM RNA-class probability 0.999785
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 21490339 73 + 23011544
UAUAAUCGGUCCUUUUCAGGACCACAAACCAGAUUC------AAUGAGA--UAAAAUUUUCUGUUGCCGACUAUUUAUAAC
(((((..((((((....))))))............(------(((((((--......)))).))))........))))).. ( -12.90, z-score =  -1.71, R)
>droYak2.chrU 21895313 73 + 28119190
UACAAUCGGUCCUUUUCAGGACCACAAACCACAUUC------AAUGAGAUUUAAAUUUUUCUUUUGCAGCCUAUUUAUA--
.......((((((....))))))............(------((.((((........))))..))).............-- ( -11.10, z-score =  -2.22, R)
>droEre2.scaffold_4845 19558368 72 - 22589142
UACAAUCGGUCCUUUUCAGGACCACAAACUACAUUC------AAUGAGAAAUAAAAUUCGCUUUAGCAGCCUUUUUUU---
.......((((((....)))))).............------.....(((......)))((....))...........--- ( -11.40, z-score =  -2.06, R)
>droAna3.scaffold_13030 42446 68 - 47400
AAAAAUCGGUCCUUUUCAGGACCACAAUGUUAUUUU-----CAAUGAGAUUUGAGUACCUAU---UGAUAUAUAAC-----
.......((((((....)))))).(((((.....((-----(((......)))))....)))---)).........----- ( -14.60, z-score =  -2.14, R)
>dp4.Unknown_singleton_1517 3175 67 + 24252
--AAAUCGGUCCUUUUCAGGACCACAAAAUAAUUUC-----CAAUGAGAUUUUUUAUUUCUGCAUACUCGUACU-------
--.....((((((....))))))...(((.((((((-----....)))))).)))...................------- ( -12.10, z-score =  -2.50, R)
>droPer1.super_0 3272744 67 + 11822988
--AAAUCGGUCCUUUUCAGGACCACAAAAUAAUUUU-----CAAUGAGAUUUUUUAUUUCUGCAUACUCGUACU-------
--.....((((((....)))))).............-----....(((((.....)))))..............------- ( -11.60, z-score =  -2.35, R)
>droWil1.scaffold_181036 3768 64 + 110856
-CAAAUCGGUCCUUUUCAGGACCACAAACUAGUCAUGUCGAUAUUGAGAUUAUUAUUUUCUUAAU----------------
-......((((((....))))))........(((.....)))(((((((.........)))))))---------------- ( -13.20, z-score =  -2.27, R)
>droVir3.scaffold_13047 1606267 64 + 19223366
--AAAUCGGUCCUUUUCAGGACCACAAAAUAUUUUA---AACAAAGAGAUUGAUAUUUUCCUAUAUACA------------
--.....((((((....))))))..((((((((...---............))))))))..........------------ ( -11.06, z-score =  -2.26, R)
>droMoj3.scaffold_6540 26915489 72 - 34148556
-CAAAUCGGUCCUUUUCAGGACCACAAUAUUUCUAA-----CAAGGAGAUUUCUAUUUUCGCUUCAACUUUUUUCAAU---
-......((((((....)))))).............-----...((((((....))))))..................--- ( -12.70, z-score =  -3.18, R)
>droGri2.scaffold_14978 523520 72 + 1124632
-CAAAUCGGUCCUUUUCAGGACCACAAAAUACUUUCA---ACAAAGAGAUUUGAGUUUUCAUAAAUAAUAUUUGAA-----
-((((((((((((....))))))........((((..---..)))).)))))).......................----- ( -15.60, z-score =  -3.02, R)
>consensus
_AAAAUCGGUCCUUUUCAGGACCACAAAAUAAUUUC_____CAAUGAGAUUUAAAUUUUCCUAUUACAGAUUUU_______
.......((((((....)))))).......................................................... ( -9.80 =  -9.80 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,490,339 – 21,490,412
Length 73
Sequences 10
Columns 81
Reading direction reverse
Mean pairwise identity 62.29
Shannon entropy 0.77945
G+C content 0.32034
Mean single sequence MFE -16.32
Consensus MFE -12.50
Energy contribution -12.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.75
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.69
SVM RNA-class probability 0.999880
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2L 21490339 73 - 23011544
GUUAUAAAUAGUCGGCAACAGAAAAUUUUA--UCUCAUU------GAAUCUGGUUUGUGGUCCUGAAAAGGACCGAUUAUA
.......((((((.(((.((((....((((--......)------)))))))...)))((((((....)))))))))))). ( -20.80, z-score =  -3.44, R)
>droYak2.chrU 21895313 73 - 28119190
--UAUAAAUAGGCUGCAAAAGAAAAAUUUAAAUCUCAUU------GAAUGUGGUUUGUGGUCCUGAAAAGGACCGAUUGUA
--(((((((((((..(((((......)))...((.....------)).))..))))))((((((....))))))..))))) ( -18.80, z-score =  -3.47, R)
>droEre2.scaffold_4845 19558368 72 + 22589142
---AAAAAAAGGCUGCUAAAGCGAAUUUUAUUUCUCAUU------GAAUGUAGUUUGUGGUCCUGAAAAGGACCGAUUGUA
---......(((((((..(((.(((......))).).))------....))))))).(((((((....)))))))...... ( -18.50, z-score =  -2.89, R)
>droAna3.scaffold_13030 42446 68 + 47400
-----GUUAUAUAUCA---AUAGGUACUCAAAUCUCAUUG-----AAAAUAACAUUGUGGUCCUGAAAAGGACCGAUUUUU
-----(((((...(((---((((((......)))).))))-----)..)))))....(((((((....)))))))...... ( -20.10, z-score =  -4.31, R)
>dp4.Unknown_singleton_1517 3175 67 - 24252
-------AGUACGAGUAUGCAGAAAUAAAAAAUCUCAUUG-----GAAAUUAUUUUGUGGUCCUGAAAAGGACCGAUUU--
-------...........((((((.(((....(((....)-----))..)))))))))((((((....)))))).....-- ( -14.10, z-score =  -1.94, R)
>droPer1.super_0 3272744 67 - 11822988
-------AGUACGAGUAUGCAGAAAUAAAAAAUCUCAUUG-----AAAAUUAUUUUGUGGUCCUGAAAAGGACCGAUUU--
-------...........((((((.(((....((.....)-----)...)))))))))((((((....)))))).....-- ( -14.30, z-score =  -2.44, R)
>droWil1.scaffold_181036 3768 64 - 110856
----------------AUUAAGAAAAUAAUAAUCUCAAUAUCGACAUGACUAGUUUGUGGUCCUGAAAAGGACCGAUUUG-
----------------..............((((.........(((.........)))((((((....))))))))))..- ( -13.00, z-score =  -1.87, R)
>droVir3.scaffold_13047 1606267 64 - 19223366
------------UGUAUAUAGGAAAAUAUCAAUCUCUUUGUU---UAAAAUAUUUUGUGGUCCUGAAAAGGACCGAUUU--
------------........(.((((((((((.....)))..---....))))))).)((((((....)))))).....-- ( -13.00, z-score =  -1.86, R)
>droMoj3.scaffold_6540 26915489 72 + 34148556
---AUUGAAAAAAGUUGAAGCGAAAAUAGAAAUCUCCUUG-----UUAGAAAUAUUGUGGUCCUGAAAAGGACCGAUUUG-
---..........................(((((......-----.((....))....((((((....))))))))))).- ( -14.20, z-score =  -2.39, R)
>droGri2.scaffold_14978 523520 72 - 1124632
-----UUCAAAUAUUAUUUAUGAAAACUCAAAUCUCUUUGU---UGAAAGUAUUUUGUGGUCCUGAAAAGGACCGAUUUG-
-----.......................((((((.((((..---..))))........((((((....))))))))))))- ( -16.40, z-score =  -2.86, R)
>consensus
_______AAAAUAUGAAAAAGGAAAAUAUAAAUCUCAUUG_____GAAAGUAUUUUGUGGUCCUGAAAAGGACCGAUUUU_
.........................................................(((((((....)))))))...... (-12.50 = -12.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:56:29 2011