Locus 5849

Sequence ID X_DroMel_CAF1
Location 15,111,015 – 15,111,172
Length 157
Max. P 0.633810
window9489 window9490

overview

Window 9

Location 15,111,015 – 15,111,132
Length 117
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 79.83
Mean single sequence MFE -26.67
Consensus MFE -19.69
Energy contribution -19.62
Covariance contribution -0.06
Combinations/Pair 1.12
Mean z-score -1.59
Structure conservation index 0.74
SVM decision value 0.21
SVM RNA-class probability 0.633810
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15111015 117 + 22224390
GACAUCCCCGGCC---UCAGCAAUGACUCCUCAGCCUCACCUAAUCAGAUGCUAAGCCUGGCCAGAUGUCCUCACAAUUCGUUAACCGAUUUUACCGAUUCCAGCCCAUUCUGGCCAUAA
.........(((.---(((....)))......(((.((.........)).)))..)))((((((((((..((......(((.(((......))).)))....))..)).))))))))... ( -25.50)
>DroSec_CAF1 22796 116 + 1
GGCAUCCCCGGCC---UCAGCAAUGAC-CCUCAGCCUCACCUAAUCAGGUGUUAAGCCUGGCCAGAUGUCCUCACCAUUCGUUAACCGAUUUUACCGAUUCCAGCCCAUCCUGGCCAUAA
(((......(((.---(((....))).-.....))).(((((....)))))....)))((((((((((..((......(((.(((......))).)))....))..))).)))))))... ( -31.50)
>DroEre_CAF1 30253 91 + 1
-----------------------------CUCAGUGCCGCCUAAUCAGGUGCGAAGCCUGGCCAGAUGUCCUCACAAUUCGUUAGCCGAUUUUACCGACUUCAGCCCAUCCUGGCCAUAA
-----------------------------....(..((.........))..)......((((((((((..((...((.(((.(((......))).))).)).))..))).)))))))... ( -21.80)
>DroYak_CAF1 29040 115 + 1
GGCAUUCCCGGCACCAUCAGCAGU-----CUCAGCCUCACCUAAUCAGGUGCUAAGCCCGGCCAGAUGUCCUCACAAUUCGUUAACCGAUUUUACCGAUUUCAGCCCAGCCUGGCCAUAA
(((......(((............-----....))).(((((....)))))....))).((((((.((..((......(((.(((......))).)))....))..))..)))))).... ( -27.89)
>consensus
GGCAUCCCCGGCC___UCAGCAAU_____CUCAGCCUCACCUAAUCAGGUGCUAAGCCUGGCCAGAUGUCCUCACAAUUCGUUAACCGAUUUUACCGAUUCCAGCCCAUCCUGGCCAUAA
.................................((..(((((....)))))....))..(((((((((..((......(((.(((......))).)))....))..))).)))))).... (-19.69 = -19.62 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,111,052 – 15,111,172
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.47
Mean single sequence MFE -27.75
Consensus MFE -23.21
Energy contribution -23.77
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.36
Structure conservation index 0.84
SVM decision value -0.02
SVM RNA-class probability 0.522689
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15111052 120 + 22224390
CUAAUCAGAUGCUAAGCCUGGCCAGAUGUCCUCACAAUUCGUUAACCGAUUUUACCGAUUCCAGCCCAUUCUGGCCAUAAAGAACCUAACGCUAUUGCGGCUUUCCAAUCCCCACAUUGA
.......(((...(((((((((((((((..((......(((.(((......))).)))....))..)).)))))))).............((....)))))))....))).......... ( -27.50)
>DroSec_CAF1 22832 120 + 1
CUAAUCAGGUGUUAAGCCUGGCCAGAUGUCCUCACCAUUCGUUAACCGAUUUUACCGAUUCCAGCCCAUCCUGGCCAUAAAGAACCUGACGCUUUUGCGGCUUUCCAAUCCCCACAUUGA
....((((((........((((((((((..((......(((.(((......))).)))....))..))).)))))))......))))))(((....)))......((((......)))). ( -29.14)
>DroEre_CAF1 30264 116 + 1
CUAAUCAGGUGCGAAGCCUGGCCAGAUGUCCUCACAAUUCGUUAGCCGAUUUUACCGACUUCAGCCCAUCCUGGCCAUAAAGAACCCGACGCCUUUGCGGC----CAGUCCCCAGAUUGA
.(((((((((.....))))(((..((.(((........(((.....))).......))).)).)))....((((((.(((((..........))))).)))----)))......))))). ( -28.26)
>DroYak_CAF1 29075 118 + 1
CUAAUCAGGUGCUAAGCCCGGCCAGAUGUCCUCACAAUUCGUUAACCGAUUUUACCGAUUUCAGCCCAGCCUGGCCAUAAACAACCAGACGCUUGUGCGGCUUUCCAAUCCCCCAAUC--
.......((....(((((.((((((.((..((......(((.(((......))).)))....))..))..))))))..............((....))))))).))............-- ( -26.10)
>consensus
CUAAUCAGGUGCUAAGCCUGGCCAGAUGUCCUCACAAUUCGUUAACCGAUUUUACCGAUUCCAGCCCAUCCUGGCCAUAAAGAACCUGACGCUUUUGCGGCUUUCCAAUCCCCACAUUGA
.........((..(((((.(((((((((..((......(((.(((......))).)))....))..))).))))))..............((....)))))))..))............. (-23.21 = -23.77 +   0.56)

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 Mon Dec 4 11:57:50 2006