Locus 4796

Sequence ID dm3.chr2R
Location 15,659,562 – 15,659,675
Length 113
Max. P 0.994907
window6589 window6590

overview

Window 9

Location 15,659,562 – 15,659,653
Length 91
Sequences 10
Columns 116
Reading direction reverse
Mean pairwise identity 84.46
Shannon entropy 0.30599
G+C content 0.34777
Mean single sequence MFE -18.04
Consensus MFE -14.20
Energy contribution -14.20
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.25
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.23
SVM RNA-class probability 0.605633
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 15659562 91 - 21146708
-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CACUCGUGCCGCACAUG-----------------------
-...((.((((((....(((((((((.....(((((......))))).)))))))))..))))))....((((..-...))))...)).....----------------------- ( -18.40, z-score =  -1.23, R)
>droSim1.chr2R 14320266 92 - 19596830
AAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CACUCGUGCCGCACAUG-----------------------
....((.((((((....(((((((((.....(((((......))))).)))))))))..))))))....((((..-...))))...)).....----------------------- ( -18.40, z-score =  -1.22, R)
>droSec1.super_1 13153117 92 - 14215200
AAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CACUCGUGCCGCACAUG-----------------------
....((.((((((....(((((((((.....(((((......))))).)))))))))..))))))....((((..-...))))...)).....----------------------- ( -18.40, z-score =  -1.22, R)
>droYak2.chr2R 7594000 91 + 21139217
-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CACUCGUGCCGCACAUG-----------------------
-...((.((((((....(((((((((.....(((((......))))).)))))))))..))))))....((((..-...))))...)).....----------------------- ( -18.40, z-score =  -1.23, R)
>droEre2.scaffold_4845 9823469 91 - 22589142
-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CACUCGUGCCGCACAUG-----------------------
-...((.((((((....(((((((((.....(((((......))))).)))))))))..))))))....((((..-...))))...)).....----------------------- ( -18.40, z-score =  -1.23, R)
>droAna3.scaffold_13266 10219096 96 + 19884421
-GACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CACUCGUGCCGUACCAGAGCAC------------------
-...((.((((((....(((((((((.....(((((......))))).)))))))))..))))))....(((.((-(....))).)))......))..------------------ ( -21.10, z-score =  -1.90, R)
>droWil1.scaffold_180701 1799029 113 - 3904529
-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CACAGACACACAACCAGU-ACGAGACUUGAGCAACAAGAA
-...((.....(((((((((((((((((...(((((......))))).....)))))).)))..))))))))...-.............(.(((-.....))).).))........ ( -16.70, z-score =  -0.76, R)
>droVir3.scaffold_12875 16601565 84 + 20611582
-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CUCGGCUACG------------------------------
-...((.((((((....(((((((((.....(((((......))))).)))))))))..)))))).....((...-..))))....------------------------------ ( -16.10, z-score =  -1.81, R)
>droMoj3.scaffold_6496 21038640 96 - 26866924
-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA-CAUACAAGCGCUCCCUCUCACU------------------
-..(((...........(((((((((.....(((((......))))).)))))))))..((((..........))-)).....)))............------------------ ( -15.60, z-score =  -1.14, R)
>droGri2.scaffold_15112 2191665 97 - 5172618
-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACGCCACGUAUACGUAUUCGUAUUCG------------------
-..........(((((((((((((((((...(((((......))))).....)))))).)))..))))))))......((.(((((....))))).))------------------ ( -18.90, z-score =  -0.74, R)
>consensus
_AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACA_CACUCGUGCCGCACAUG_______________________
...........(((((((((((((((((...(((((......))))).....)))))).)))..))))))))............................................ (-14.20 = -14.20 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,659,576 – 15,659,675
Length 99
Sequences 12
Columns 117
Reading direction reverse
Mean pairwise identity 81.81
Shannon entropy 0.37425
G+C content 0.35642
Mean single sequence MFE -25.32
Consensus MFE -17.35
Energy contribution -18.69
Covariance contribution 1.34
Combinations/Pair 1.03
Mean z-score -2.77
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.75
SVM RNA-class probability 0.994907
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15659576 99 - 21146708
--------------CAUGUCUGAGUGCGU---UUCCUCCAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAC-
--------------..(((((((((((((---(......)))))))))).((((((((((((((((...(((((......))))).....)))))).)))..)))))))))))...- ( -26.20, z-score =  -3.22, R)
>droSim1.chr2R 14320280 100 - 19596830
--------------CAUGUCUGAGUGCGU--UUCCUCCAAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAC-
--------------..(((((((((((((--((.....))))))))))).((((((((((((((((...(((((......))))).....)))))).)))..)))))))))))...- ( -26.90, z-score =  -3.44, R)
>droSec1.super_1 13153131 100 - 14215200
--------------CAUGUCUGAGUGCGU--UUCCUCCAAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAC-
--------------..(((((((((((((--((.....))))))))))).((((((((((((((((...(((((......))))).....)))))).)))..)))))))))))...- ( -26.90, z-score =  -3.44, R)
>droYak2.chr2R 7594014 99 + 21139217
--------------CAUGUCUGAGUGCGU---UUCCUCCAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAC-
--------------..(((((((((((((---(......)))))))))).((((((((((((((((...(((((......))))).....)))))).)))..)))))))))))...- ( -26.20, z-score =  -3.22, R)
>droEre2.scaffold_4845 9823483 99 - 22589142
--------------CAUGUCUGAGUGCGU---UUCCUCCAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAC-
--------------..(((((((((((((---(......)))))))))).((((((((((((((((...(((((......))))).....)))))).)))..)))))))))))...- ( -26.20, z-score =  -3.22, R)
>droAna3.scaffold_13266 10219115 99 + 19884421
--------------CAUGUCUGAGUGCGU---UUCCUCCGACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAC-
--------------..(((((((((((((---(......)))))))))).((((((((((((((((...(((((......))))).....)))))).)))..)))))))))))...- ( -26.60, z-score =  -3.11, R)
>droPer1.super_2 198036 79 + 9036312
--------------CAUGUCUGAGUGCGU--UUCCUCC-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACUAGGAUAUUAAAUGCAAA---------------------
--------------......(((((((((--(......-))))))))))......(((((((((.....(((((......))))).))))))))).--------------------- ( -20.40, z-score =  -3.53, R)
>droWil1.scaffold_180701 1799064 100 - 3904529
--------------CAUGUCUGAGUGCGU---UUCCUCCAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACACA
--------------..(((((((((((((---(......)))))))))).((((((((((((((((...(((((......))))).....)))))).)))..))))))))))).... ( -26.20, z-score =  -3.08, R)
>droVir3.scaffold_12875 16601572 115 + 20611582
CUAUCUGAGAACC-CAAGUCUGAGUGCGUCGUUGCCUAGAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACUC-
.............-.......(((((((((.(..(...(((((......))))).(((((((((.....(((((......))))).)))))))))...)..)....)))).)))))- ( -27.00, z-score =  -1.93, R)
>droMoj3.scaffold_6496 21038659 116 - 26866924
CUAUGUGAGAGUCAUGUGUCUGAGUGCGUCGCUGCCUGGAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAU-
.............((((((((((((((((..(.....)..))))))))).((((((((((((((((...(((((......))))).....)))))).)))..))))))))))))))- ( -30.60, z-score =  -1.39, R)
>droGri2.scaffold_15112 2191684 112 - 5172618
-----UAUGUAUGCGAACAACAACAGCAGCAUUGCCUCGAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACGCCAC
-----.((((.(((...........))))))).((.(((......((((((....(((((((((.....(((((......))))).)))))))))..)))))).....))).))... ( -20.30, z-score =  -0.09, R)
>dp4.chr3 12786266 79 - 19779522
--------------CAUGUCUGAGUGCGU--UUCCUCC-AACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACUAGGAUAUUAAAUGCAAA---------------------
--------------......(((((((((--(......-))))))))))......(((((((((.....(((((......))))).))))))))).--------------------- ( -20.40, z-score =  -3.53, R)
>consensus
______________CAUGUCUGAGUGCGU__UUUCCUCCAACGCAUUUACGUUUAUUGCAUUUGUAAAUUAUUCACACAAGGAUAUUAAAUGCAAAUUGUGAAAUAGACGACACAC_
....................(((((((((...........)))))))))(((((((((((((((.....(((((......))))).))))))))).........))))))....... (-17.35 = -18.69 +   1.34)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:36:10 2011