Locus 82

Sequence ID X_DroMel_CAF1
Location 332,592 – 332,832
Length 240
Max. P 0.903066
window107 window108 window109 window110 window111

overview

Window 7

Location 332,592 – 332,712
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -40.15
Consensus MFE -37.39
Energy contribution -37.33
Covariance contribution -0.06
Combinations/Pair 1.05
Mean z-score -2.00
Structure conservation index 0.93
SVM decision value 0.89
SVM RNA-class probability 0.876261
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 332592 120 - 22224390
UGCAUGGAACUGACAAAAACACGGUUUCAACUUGGCAUCAACCUGCUUAAGAUCACCUCCGAGGAGGUGGUAAGCAACAGGGGCGACCUGACCACCGAAUGGAAGCAGUACUUCUACUCC
(((.((((((((.........)))))))).(((((((......))).))))((((((((....))))))))..))).((((.....))))......((.((((((.....)))))).)). ( -38.40)
>DroSec_CAF1 33 120 - 1
UGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCAACCUGCUUAAGAUCACCUCCGAGGAGGUGGUAAGCAACCGGGGCGACCUGACCACCGAAUGGAAGCAGUACUUCUACUCC
.((.((((((((.........)))))))))).(((........(((((...((((((((....)))))))))))))..((((....)))).)))..((.((((((.....)))))).)). ( -40.30)
>DroEre_CAF1 41 120 - 1
UGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCAACCUGCUUAGGAUCACCUCUGAGGAGGUGGUAAGCAACAGGGGCGACCUGACCACCGAAUGGAAGCAGUACUUCUACUCC
.((.((((((((.........)))))))))).(((........(((((...((((((((....))))))))))))).((((.....)))).)))..((.((((((.....)))))).)). ( -38.60)
>DroYak_CAF1 2 120 - 1
UGCAUGGAACUGACGAAAACACGGUUUCAGCUCGGCAUCAACCUGCUCAAGAUCACCUCCGAGGAGGUGGUGAGCAACAGGGGCGACCUGACCACCGAAUGGAAGCAGUACUUCUACUCC
.((.((((((((.........))))))))))((((........((((((...(((((((....))))))))))))).((((.....))))....)))).((((((.....)))))).... ( -43.30)
>consensus
UGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCAACCUGCUUAAGAUCACCUCCGAGGAGGUGGUAAGCAACAGGGGCGACCUGACCACCGAAUGGAAGCAGUACUUCUACUCC
.((.((((((((.........))))))))))((((........(((((...((((((((....))))))))))))).((((.....))))....)))).((((((.....)))))).... (-37.39 = -37.33 +  -0.06)

alignment

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secondary structure

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Window 8

Location 332,632 – 332,752
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.75
Mean single sequence MFE -38.15
Consensus MFE -33.72
Energy contribution -34.10
Covariance contribution 0.38
Combinations/Pair 1.03
Mean z-score -1.98
Structure conservation index 0.88
SVM decision value 1.03
SVM RNA-class probability 0.903066
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 332632 120 - 22224390
GAGGGAGUUCCCUGAACAGGACCCCAAUUACAUGCAACACUGCAUGGAACUGACAAAAACACGGUUUCAACUUGGCAUCAACCUGCUUAAGAUCACCUCCGAGGAGGUGGUAAGCAACAG
.((((....))))......((..((((...((((((....))))))((((((.........))))))....))))..))....(((((...((((((((....))))))))))))).... ( -37.30)
>DroSec_CAF1 73 120 - 1
GAGGGAGUUCCCUGAACAGGACCCCAAUUACAUGCAACACUGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCAACCUGCUUAAGAUCACCUCCGAGGAGGUGGUAAGCAACCG
..(..((((((((....)))..........((((((....)))))))))))..).......(((((...((((((((......))))....((((((((....))))))))))))))))) ( -39.10)
>DroEre_CAF1 81 120 - 1
GAGGGAGUUCCCCGAACAGGACCCAAACUACAUGCAGCACUGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCAACCUGCUUAGGAUCACCUCUGAGGAGGUGGUAAGCAACAG
..(((.....)))......((.((((.((.((((((....))))))((((((.........)))))).)).))))..))....(((((...((((((((....))))))))))))).... ( -35.40)
>DroYak_CAF1 42 120 - 1
GCGCGAGUUCCCCGAACAGGACCCCAACUACAUGCAGCACUGCAUGGAACUGACGAAAACACGGUUUCAGCUCGGCAUCAACCUGCUCAAGAUCACCUCCGAGGAGGUGGUGAGCAACAG
((.((((((..((.....))..........((((((....))))))((((((.........)))))).)))))))).......((((((...(((((((....))))))))))))).... ( -40.80)
>consensus
GAGGGAGUUCCCCGAACAGGACCCCAACUACAUGCAACACUGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCAACCUGCUUAAGAUCACCUCCGAGGAGGUGGUAAGCAACAG
..(((.((((........))))))).....((((((....))))))((((((.........))))))..((((((((......))))....((((((((....))))))))))))..... (-33.72 = -34.10 +   0.38)

alignment

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secondary structure

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Window 9

Location 332,672 – 332,792
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.75
Mean single sequence MFE -43.33
Consensus MFE -39.91
Energy contribution -40.60
Covariance contribution 0.69
Combinations/Pair 1.09
Mean z-score -1.61
Structure conservation index 0.92
SVM decision value 0.57
SVM RNA-class probability 0.785982
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 332672 120 + 22224390
UGAUGCCAAGUUGAAACCGUGUUUUUGUCAGUUCCAUGCAGUGUUGCAUGUAAUUGGGGUCCUGUUCAGGGAACUCCCUCUUUCCGAGUAGGGCUAUCAACUGGGCCAGUGUGUCCCUGU
....(((.((((((.............((((((.(((((......))))).))))))((((((((((((((....))))......)))))))))).)))))).)))(((.......))). ( -38.40)
>DroSec_CAF1 113 120 + 1
UGAUGCCAAGCUGAAACCGUGUUUUUGUCAGUUCCAUGCAGUGUUGCAUGUAAUUGGGGUCCUGUUCAGGGAACUCCCUCUUUCCGAGCAGGGCUAUCAACUGGGCCAGUGUGUCCCUGU
.(((((...((((...(((.(((....((((((.(((((......))))).))))))((((((((((((((....))))......))))))))))...))))))..)))))))))..... ( -41.00)
>DroEre_CAF1 121 120 + 1
UGAUGCCAAGCUGAAACCGUGUUUUUGUCAGUUCCAUGCAGUGCUGCAUGUAGUUUGGGUCCUGUUCGGGGAACUCCCUCUUUCCGAGCAGGGCUAUCAACUGGGCCAACGUGUCCCUCU
(((((((((((((((((...))))..........((((((....))))))))))))))(((((((((((..(........)..))))))))))))))))...(((.(.....).)))... ( -43.80)
>DroYak_CAF1 82 120 + 1
UGAUGCCGAGCUGAAACCGUGUUUUCGUCAGUUCCAUGCAGUGCUGCAUGUAGUUGGGGUCCUGUUCGGGGAACUCGCGCUUUCCGAGCAGGGCUAUCAGCUGGGCCAGUGUGUCCCUGU
....(((.((((((.............(((..(.((((((....)))))).)..)))((((((((((((..(........)..)))))))))))).)))))).)))(((.......))). ( -50.10)
>consensus
UGAUGCCAAGCUGAAACCGUGUUUUUGUCAGUUCCAUGCAGUGCUGCAUGUAAUUGGGGUCCUGUUCAGGGAACUCCCUCUUUCCGAGCAGGGCUAUCAACUGGGCCAGUGUGUCCCUGU
....(((.((((((.............((((((.((((((....)))))).))))))((((((((((((..(........)..)))))))))))).)))))).))).............. (-39.91 = -40.60 +   0.69)

alignment

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secondary structure

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Window 0

Location 332,672 – 332,792
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.75
Mean single sequence MFE -38.02
Consensus MFE -32.41
Energy contribution -32.35
Covariance contribution -0.06
Combinations/Pair 1.09
Mean z-score -1.94
Structure conservation index 0.85
SVM decision value 0.73
SVM RNA-class probability 0.834274
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 332672 120 - 22224390
ACAGGGACACACUGGCCCAGUUGAUAGCCCUACUCGGAAAGAGGGAGUUCCCUGAACAGGACCCCAAUUACAUGCAACACUGCAUGGAACUGACAAAAACACGGUUUCAACUUGGCAUCA
.(((.......)))(((.((((((.((((...(((.....)))..((((((((....)))..........((((((....)))))))))))...........)))))))))).))).... ( -36.70)
>DroSec_CAF1 113 120 - 1
ACAGGGACACACUGGCCCAGUUGAUAGCCCUGCUCGGAAAGAGGGAGUUCCCUGAACAGGACCCCAAUUACAUGCAACACUGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCA
.(((.......)))(((.((((((.((((.((.((((.....(((.((((........))))))).....((((((....))))))...))))......)).)))))))))).))).... ( -37.40)
>DroEre_CAF1 121 120 - 1
AGAGGGACACGUUGGCCCAGUUGAUAGCCCUGCUCGGAAAGAGGGAGUUCCCCGAACAGGACCCAAACUACAUGCAGCACUGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCA
..............(((.((((((.((((.(((((.....)))..(((((.((.....))..........((((((....)))))))))))........)).)))))))))).))).... ( -34.30)
>DroYak_CAF1 82 120 - 1
ACAGGGACACACUGGCCCAGCUGAUAGCCCUGCUCGGAAAGCGCGAGUUCCCCGAACAGGACCCCAACUACAUGCAGCACUGCAUGGAACUGACGAAAACACGGUUUCAGCUCGGCAUCA
.(((.......)))(((.((((((.(((((((.((((..(((....)))..)))).)))...........((((((....))))))................)))))))))).))).... ( -43.70)
>consensus
ACAGGGACACACUGGCCCAGUUGAUAGCCCUGCUCGGAAAGAGGGAGUUCCCCGAACAGGACCCCAACUACAUGCAACACUGCAUGGAACUGACAAAAACACGGUUUCAGCUUGGCAUCA
.((((....).)))(((.((((((.((((...(((.....)))..(((((((......))..........((((((....)))))))))))...........)))))))))).))).... (-32.41 = -32.35 +  -0.06)

alignment

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secondary structure

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Window 1

Location 332,712 – 332,832
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -48.65
Consensus MFE -44.19
Energy contribution -44.62
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -1.84
Structure conservation index 0.91
SVM decision value 0.99
SVM RNA-class probability 0.896084
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 332712 120 + 22224390
GUGUUGCAUGUAAUUGGGGUCCUGUUCAGGGAACUCCCUCUUUCCGAGUAGGGCUAUCAACUGGGCCAGUGUGUCCCUGUGCCGUUUGGCCACAUUUGGAGUGGCUACCAGUUGGGCAUA
....(((..........((((((((((((((....))))......)))))))))).(((((((((((((.......))).)))...(((((((.......))))))).)))))))))).. ( -43.60)
>DroSec_CAF1 153 120 + 1
GUGUUGCAUGUAAUUGGGGUCCUGUUCAGGGAACUCCCUCUUUCCGAGCAGGGCUAUCAACUGGGCCAGUGUGUCCCUGUGCCGUUUGGCCACAUUUGGAGUGGCUCCCAGUUGGGCAUA
....(((..........((((((((((((((....))))......)))))))))).(((((((((((((.......))).)))....((((((.......))))))..)))))))))).. ( -47.10)
>DroEre_CAF1 161 120 + 1
GUGCUGCAUGUAGUUUGGGUCCUGUUCGGGGAACUCCCUCUUUCCGAGCAGGGCUAUCAACUGGGCCAACGUGUCCCUCUGCCGUUUGGCCACAUUUGAAGUGGCUCCCAGUUGGGCAUA
(((((............((((((((((((..(........)..))))))))))))..((((((((..((((.((......)))))).((((((.......))))))))))))))))))). ( -52.80)
>DroYak_CAF1 122 120 + 1
GUGCUGCAUGUAGUUGGGGUCCUGUUCGGGGAACUCGCGCUUUCCGAGCAGGGCUAUCAGCUGGGCCAGUGUGUCCCUGUGCCGUUUGGCCACAUUCGGAGUGGCUCCCAGUUGGGCGUA
..(((............((((((((((((..(........)..))))))))))))..(((((((((((.(.((....((((((....)).))))..)).).))))..))))))))))... ( -51.10)
>consensus
GUGCUGCAUGUAAUUGGGGUCCUGUUCAGGGAACUCCCUCUUUCCGAGCAGGGCUAUCAACUGGGCCAGUGUGUCCCUGUGCCGUUUGGCCACAUUUGGAGUGGCUCCCAGUUGGGCAUA
....(((..........((((((((((((..(........)..)))))))))))).(((((((((((((.......))).)))....((((((.......))))))..)))))))))).. (-44.19 = -44.62 +   0.44)

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 09:33:38 2006