Locus 6575

Sequence ID 3R_DroMel_CAF1
Location 17,313,471 – 17,313,589
Length 118
Max. P 0.999791
window10697 window10698

overview

Window 7

Location 17,313,471 – 17,313,589
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.12
Mean single sequence MFE -26.63
Consensus MFE -9.93
Energy contribution -9.89
Covariance contribution -0.04
Combinations/Pair 1.28
Mean z-score -3.00
Structure conservation index 0.37
SVM decision value 3.68
SVM RNA-class probability 0.999520
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17313471 118 + 27905053
-UAUAUCCAAAAAAAAUUUUCCAAAACACUUUUUAGAACAUAAAAUUCUGGUAUCGCUGAUUUCGUACAGUUUUAUCUGGCAGCCCUAUA-AAUUACUCGUUGUCUGGUGCUGCCAGACU
-.....................(((((......(((((.......)))))(((.((.......))))).))))).(((((((((((.(((-(........))))..)).))))))))).. ( -24.30)
>DroSec_CAF1 46038 116 + 1
AUAUAUCCAAA---AGUGUUUCCUAGCACUUUUUAGAACAUAAAAUUCUAGUAUCGCUGAUUUGGUACAAUUUUAGCUGGCAACACUACG-AACUAUUCGUUGUCUGGUGCUGCCAGACU
...........---((((((.((.(((......(((((.......)))))((((((......)))))).......))))).))))))(((-(.....)))).((((((.....)))))). ( -30.60)
>DroSim_CAF1 47581 116 + 1
AUAUAUCCAAA---AGUGUUUCCCAGCACUUUUUAGAACAUAAAAUUCUUAUAUCGCUGAUUUGGUACAAUUUUAGCUGGCAACACUAUG-AACUAUUCGUUUUCUGGUGCUGCCAGACU
........(((---(((((......)))))))).......(((((((....(((((......))))).))))))).((((((.(((((.(-(((.....))))..))))).))))))... ( -26.60)
>DroEre_CAF1 49281 101 + 1
AUGUCUCCAAA---AGUGUUUUCCAACACUUUUUAGAACACAAAAUUCUGGUAACACUGAUUCCGCCC----------------GCUACGAAAUUAUUCCUUUUCUAGUGUUGCCAGACU
.(((((..(((---((((((....))))))))).)).)))......(((((((((((((.....(...----------------.)...((((........))))))))))))))))).. ( -27.70)
>DroYak_CAF1 51174 101 + 1
ACAUAUGACAA---AGUGCUUCCCAACACUUUUUAGAACACCAAAUUCUGGUAACACUGAAGUCGUCC----------------ACUACGAAAUUAUUCCUUGUGUAGUGUUGCCAGACU
.....(((.((---((((........)))))))))...........(((((((((((((...((((..----------------...))))..............))))))))))))).. ( -23.93)
>consensus
AUAUAUCCAAA___AGUGUUUCCCAACACUUUUUAGAACAUAAAAUUCUGGUAUCGCUGAUUUCGUACA_UUUUA_CUGGCA_CACUACG_AAUUAUUCGUUGUCUGGUGCUGCCAGACU
...............((((((..............)))))).....(((((((.(((((..............................................))))).))))))).. ( -9.93 =  -9.89 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,313,471 – 17,313,589
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.12
Mean single sequence MFE -31.59
Consensus MFE -11.30
Energy contribution -12.42
Covariance contribution 1.12
Combinations/Pair 1.26
Mean z-score -3.25
Structure conservation index 0.36
SVM decision value 4.09
SVM RNA-class probability 0.999791
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17313471 118 - 27905053
AGUCUGGCAGCACCAGACAACGAGUAAUU-UAUAGGGCUGCCAGAUAAAACUGUACGAAAUCAGCGAUACCAGAAUUUUAUGUUCUAAAAAGUGUUUUGGAAAAUUUUUUUUGGAUAUA-
.((((((((((.((...............-....))))))))))))....(((........))).....((((((.......((((((((....))))))))......)))))).....- ( -31.63)
>DroSec_CAF1 46038 116 - 1
AGUCUGGCAGCACCAGACAACGAAUAGUU-CGUAGUGUUGCCAGCUAAAAUUGUACCAAAUCAGCGAUACUAGAAUUUUAUGUUCUAAAAAGUGCUAGGAAACACU---UUUGGAUAUAU
((.((((((((((...(((((.....)))-.)).)))))))))))).....(((((((((..((((....((((((.....)))))).....)))).(....)...---))))).)))). ( -34.70)
>DroSim_CAF1 47581 116 - 1
AGUCUGGCAGCACCAGAAAACGAAUAGUU-CAUAGUGUUGCCAGCUAAAAUUGUACCAAAUCAGCGAUAUAAGAAUUUUAUGUUCUAAAAAGUGCUGGGAAACACU---UUUGGAUAUAU
((.((((((((((.....(((.....)))-....)))))))))))).....(((((((((.(((((.....(((((.....)))))......)))))(....)...---))))).)))). ( -34.20)
>DroEre_CAF1 49281 101 - 1
AGUCUGGCAACACUAGAAAAGGAAUAAUUUCGUAGC----------------GGGCGGAAUCAGUGUUACCAGAAUUUUGUGUUCUAAAAAGUGUUGGAAAACACU---UUUGGAGACAU
..(((((.((((((.((..........((((((...----------------..)))))))))))))).)))))....(((.(((..(((((((((....))))))---)))))).))). ( -31.20)
>DroYak_CAF1 51174 101 - 1
AGUCUGGCAACACUACACAAGGAAUAAUUUCGUAGU----------------GGACGACUUCAGUGUUACCAGAAUUUGGUGUUCUAAAAAGUGUUGGGAAGCACU---UUGUCAUAUGU
..(((((.((((((.(((.(.(((....))).).))----------------)((.....)))))))).)))))..((((....))))((((((((....))))))---))......... ( -26.20)
>consensus
AGUCUGGCAGCACCAGACAACGAAUAAUU_CGUAGUG_UGCCAG_UAAAA_UGUACGAAAUCAGCGAUACCAGAAUUUUAUGUUCUAAAAAGUGUUGGGAAACACU___UUUGGAUAUAU
.((((((.....))))))............................................................(((((((.....((((((....))))))......))))))). (-11.30 = -12.42 +   1.12)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:49 2006