Locus 7420

Sequence ID X_DroMel_CAF1
Location 18,511,499 – 18,511,629
Length 130
Max. P 0.998714
window12165 window12166 window12167 window12168

overview

Window 5

Location 18,511,499 – 18,511,598
Length 99
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.63
Mean single sequence MFE -33.40
Consensus MFE -26.61
Energy contribution -26.61
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.40
Structure conservation index 0.80
SVM decision value 3.20
SVM RNA-class probability 0.998714
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18511499 99 + 22224390
UCAGCUGGCAUAAUACCAAGCCAAAGCCAUAUAGCCAUA--GCUAAAGCCAUA----UAGCC---------------AUAUAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCG
...((((((..........((....))..(((((((.((--((((..((.(((----(....---------------)))).))..))).))).))))))).))))))((((...)))). ( -31.90)
>DroSec_CAF1 19876 91 + 1
UCAGCUGGCAUAUUACCAAGCCAAAGCCAUAUAGCCAUA--GCUAAAGCCAUA---------------------------UAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCG
...((((((..........((....))..(((((((.((--((((..((....---------------------------..))..))).))).))))))).))))))((((...)))). ( -30.40)
>DroEre_CAF1 19535 114 + 1
UCAGCUGGCAUAAUACGCAGCCAAAGCCAUAUAGCCAUA--GCUAAAGCCAUA----UAGCCAUAUAGCCAUAUAGCAUAAAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCG
...((((((.......((.......))..(((((((.((--((((..((..((----(.((.((((....)))).)))))..))..))).))).))))))).))))))((((...)))). ( -34.40)
>DroYak_CAF1 20599 119 + 1
UCAGCUGGCAUAAUACCAAGCCAAAGCCAUAUAGCCAUAUAGCUAAAGCCAUAGCUAAAGCCAUAUAGCUAAA-GCCAUAUAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCG
...((((((..........((....))..(((((((.(((.((....)).)))((((..((.((((.((....-)).)))).))..))))....))))))).))))))((((...)))). ( -36.90)
>consensus
UCAGCUGGCAUAAUACCAAGCCAAAGCCAUAUAGCCAUA__GCUAAAGCCAUA____UAGCC_______________AUAUAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCG
...((((((..........((....))..(((((((.....((((..((.................................))..))))....))))))).))))))((((...)))). (-26.61 = -26.61 +  -0.00)

alignment

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secondary structure

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Window 6

Location 18,511,499 – 18,511,598
Length 99
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 82.63
Mean single sequence MFE -49.55
Consensus MFE -32.00
Energy contribution -32.74
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -6.00
Structure conservation index 0.65
SVM decision value 1.67
SVM RNA-class probability 0.971307
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18511499 99 - 22224390
CGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUAUAU---------------GGCUA----UAUGGCUUUAGC--UAUGGCUAUAUGGCUUUGGCUUGGUAUUAUGCCAGCUGA
.((((...))))((((((.((..((((..(((((.((((((((---------------(((((----(..(((....))--))))))))))))))).)))))))))..)).))))))... ( -47.70)
>DroSec_CAF1 19876 91 - 1
CGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUA---------------------------UAUGGCUUUAGC--UAUGGCUAUAUGGCUUUGGCUUGGUAAUAUGCCAGCUGA
.((((...))))((((((.((..((((..(((((.(((((---------------------------(((((((.....--...)))))))))))).)))))))))..)).))))))... ( -43.60)
>DroEre_CAF1 19535 114 - 1
CGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUUUAUGCUAUAUGGCUAUAUGGCUA----UAUGGCUUUAGC--UAUGGCUAUAUGGCUUUGGCUGCGUAUUAUGCCAGCUGA
.((((...))))((((((((((....))))(((((((((....(((((((((((....)))))----))))))...)))--))))))(((..(((....)))..)))....))))))... ( -51.20)
>DroYak_CAF1 20599 119 - 1
CGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUAUAUGGC-UUUAGCUAUAUGGCUUUAGCUAUGGCUUUAGCUAUAUGGCUAUAUGGCUUUGGCUUGGUAUUAUGCCAGCUGA
.((((...))))((((((((((....))))((((.(((((...(((-(.(((((((((((((..(((....)))..)))))))))))))...)))).))))))))).....))))))... ( -55.70)
>consensus
CGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUAUAU_______________GGCUA____UAUGGCUUUAGC__UAUGGCUAUAUGGCUUUGGCUUGGUAUUAUGCCAGCUGA
.((((...))))((((((.((..((((..(((((.(((((...........................(((((((..........)))))))))))).)))))))))..)).))))))... (-32.00 = -32.74 +   0.75)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,511,538 – 18,511,629
Length 91
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 71.57
Mean single sequence MFE -27.38
Consensus MFE -16.87
Energy contribution -17.37
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.62
SVM decision value 1.35
SVM RNA-class probability 0.944987
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18511538 91 + 22224390
-GCUAAAGCCAUA----UAGCC---------------AUAUAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCGCCAGCAGACCGACGACAAAAAGCAGCCGCAG
-((((..((.(((----(....---------------)))).))..))))...(((((....((..((((((...))))))..)).)))))..........((....)).. ( -26.70)
>DroPse_CAF1 22313 70 + 1
--------------------------------------UGCAGCCAUAGCCAACGGUUGUAGGCCAGCGGUCAACGACCGGCAGUCG--CAGCAACAGACA-CAGCCGCAG
--------------------------------------(((.((....(((...((((((.((((...)))).))))))))).(((.--........))).-..)).))). ( -23.80)
>DroSec_CAF1 19915 83 + 1
-GCUAAAGCCAUA---------------------------UAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCGCCAGCAGACCGACGACAAAAAGCAGCCGCAG
-((((..((....---------------------------..))..))))...(((((....((..((((((...))))))..)).)))))..........((....)).. ( -25.20)
>DroEre_CAF1 19574 106 + 1
-GCUAAAGCCAUA----UAGCCAUAUAGCCAUAUAGCAUAAAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCGCCAGCAGACCGACGACAAAAAGCAGCCGCAG
-((((..((..((----(.((.((((....)))).)))))..))..))))...(((((....((..((((((...))))))..)).)))))..........((....)).. ( -28.90)
>DroYak_CAF1 20639 110 + 1
AGCUAAAGCCAUAGCUAAAGCCAUAUAGCUAAA-GCCAUAUAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCGCCAGCAGACCGACGACAAAAAGCAGCCGCAG
.(((.........((((..((.((((.((....-)).)))).))..))))...(((((....((..((((((...))))))..)).))))).........)))........ ( -32.70)
>DroPer_CAF1 22864 70 + 1
--------------------------------------UGCUGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCGGCAGUCG--CAGCAACAGACA-CAGCCGCAG
--------------------------------------((((((.((.(((...((((((.((((...)))).))))))))).)).)--))))).......-......... ( -27.00)
>consensus
_GCUAAAGCCAUA_________________________UAUAGCCAUAGCCUACGGUUGUAGGCCAGCGGUCAACGACCGCCAGCAGACCGACGACAAAAAGCAGCCGCAG
..........................................((....((((((....))))))..((((((...))))))..........................)).. (-16.87 = -17.37 +   0.50)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,511,538 – 18,511,629
Length 91
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 71.57
Mean single sequence MFE -37.52
Consensus MFE -24.41
Energy contribution -24.80
Covariance contribution 0.39
Combinations/Pair 1.09
Mean z-score -2.96
Structure conservation index 0.65
SVM decision value 2.77
SVM RNA-class probability 0.996918
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18511538 91 - 22224390
CUGCGGCUGCUUUUUGUCGUCGGUCUGCUGGCGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUAUAU---------------GGCUA----UAUGGCUUUAGC-
(((((((.((.....)).)))(((..((..((((((...))))))..)).....)))))))((((.((((((((---------------....)----))))))).))))- ( -38.60)
>DroPse_CAF1 22313 70 - 1
CUGCGGCUG-UGUCUGUUGCUG--CGACUGCCGGUCGUUGACCGCUGGCCUACAACCGUUGGCUAUGGCUGCA--------------------------------------
..(((((((-((...(((...(--((((.....))))).))).((..((........))..))))))))))).-------------------------------------- ( -24.60)
>DroSec_CAF1 19915 83 - 1
CUGCGGCUGCUUUUUGUCGUCGGUCUGCUGGCGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUA---------------------------UAUGGCUUUAGC-
(((((((.((.....)).)))(((..((..((((((...))))))..)).....)))))))((((.((((.---------------------------...)))).))))- ( -34.40)
>DroEre_CAF1 19574 106 - 1
CUGCGGCUGCUUUUUGUCGUCGGUCUGCUGGCGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUUUAUGCUAUAUGGCUAUAUGGCUA----UAUGGCUUUAGC-
(((((((........)))).)))...((((((((((...)))))))(((((((....)))))))..))).....(((((((((((....)))))----))))))......- ( -44.90)
>DroYak_CAF1 20639 110 - 1
CUGCGGCUGCUUUUUGUCGUCGGUCUGCUGGCGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUAUAUGGC-UUUAGCUAUAUGGCUUUAGCUAUGGCUUUAGCU
...((((.((.....)).))))((..((..((((((...))))))..))..))..((((((.(((.(((((((((((-....))))))))))).)))))))))........ ( -49.80)
>DroPer_CAF1 22864 70 - 1
CUGCGGCUG-UGUCUGUUGCUG--CGACUGCCGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCAGCA--------------------------------------
..(((((..-........))))--)(.(((((((((...))))..((((((((....)))))))).)))))).-------------------------------------- ( -32.80)
>consensus
CUGCGGCUGCUUUUUGUCGUCGGUCUGCUGGCGGUCGUUGACCGCUGGCCUACAACCGUAGGCUAUGGCUAUA_________________________UAUGGCUUUAGC_
..(((((........)))))......((((((((((...)))))))(((((((....)))))))..))).......................................... (-24.41 = -24.80 +   0.39)

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 12:38:29 2006