Locus 6122

Sequence ID 3R_DroMel_CAF1
Location 16,047,001 – 16,047,120
Length 119
Max. P 0.878350
window9980 window9981

overview

Window 0

Location 16,047,001 – 16,047,094
Length 93
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.35
Mean single sequence MFE -17.91
Consensus MFE -13.69
Energy contribution -13.47
Covariance contribution -0.22
Combinations/Pair 1.11
Mean z-score -1.20
Structure conservation index 0.76
SVM decision value 0.02
SVM RNA-class probability 0.542858
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16047001 93 - 27905053
ACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA--CCUUAG-------------------------UAUCCCGGG
.((..(((((.............(((((((((..............)))))))))...............(((.....--.)))))-------------------------)))...)). ( -16.44)
>DroPse_CAF1 4309 112 - 1
ACUUAAUACUUGUAGAGAUUACAGUUGAGUGCAUUUCCA-AAGUCAGCACUCGGCACAAUAUAAAUUCAAAAGCCAAGAACCCCCAUAUUCCAUC-------CAUGUGCCAUCUCCCAUG
..............(((((.......((((((.......-......))))))((((((.....................................-------..)))))))))))..... ( -20.35)
>DroSec_CAF1 4498 93 - 1
ACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA--CCUUAG-------------------------UAUCCCGGG
.((..(((((.............(((((((((..............)))))))))...............(((.....--.)))))-------------------------)))...)). ( -16.44)
>DroSim_CAF1 4572 93 - 1
ACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA--CCUUAG-------------------------UAUCCCGGG
.((..(((((.............(((((((((..............)))))))))...............(((.....--.)))))-------------------------)))...)). ( -16.44)
>DroYak_CAF1 11978 93 - 1
ACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAG--CCUUAG-------------------------UAUCCCGGG
..((((.((((...(......).(((((((((..............)))))))))....................)))--).))))-------------------------......... ( -17.64)
>DroPer_CAF1 4206 119 - 1
ACUUAAUACUUGUAGAGAUUACAGUUGAGUGCAUUUCCA-AAGUCAGCACUCGGCACAAUAUAAAUUCAAAAGCCAAGAACCCCCAUAUUCCAUCCCUAUUCCAUGUGCCAUCUCCCAUG
..............(((((.......((((((.......-......))))))((((((..............................................)))))))))))..... ( -20.17)
>consensus
ACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA__CCUUAG_________________________UAUCCCGGG
.......................(((((((((..............)))))))))................................................................. (-13.69 = -13.47 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,047,016 – 16,047,120
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.99
Mean single sequence MFE -22.28
Consensus MFE -19.62
Energy contribution -20.04
Covariance contribution 0.42
Combinations/Pair 1.14
Mean z-score -1.91
Structure conservation index 0.88
SVM decision value 0.90
SVM RNA-class probability 0.878350
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16047016 104 - 27905053
-----------GU--GCGC-UUUGAAAAAAGGUUACACACACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA--
-----------.(--(.((-((((((...((((.......))))...................(((((((((..............)))))))))..........))).)))))))..-- ( -22.94)
>DroPse_CAF1 4342 118 - 1
-AAAUGAAUGGAUUGGCGCCCCAGAAAAAAGGUUACACACACUUAAUACUUGUAGAGAUUACAGUUGAGUGCAUUUCCA-AAGUCAGCACUCGGCACAAUAUAAAUUCAAAAGCCAAGAA
-...........(((((.................................(((((...)))))(((((((((.......-......))))))))).................)))))... ( -21.32)
>DroSec_CAF1 4513 104 - 1
-----------GU--GCGC-UUUGAAAAAAGGUUACACACACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA--
-----------.(--(.((-((((((...((((.......))))...................(((((((((..............)))))))))..........))).)))))))..-- ( -22.94)
>DroSim_CAF1 4587 104 - 1
-----------GU--GCGC-UUUGAAAAAAGGUUACACACACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA--
-----------.(--(.((-((((((...((((.......))))...................(((((((((..............)))))))))..........))).)))))))..-- ( -22.94)
>DroYak_CAF1 11993 104 - 1
-----------GU--UUGC-UUUGGAAAAAGGUUACACACACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAG--
-----------..--..((-(((.(((..((((.......))))...................(((((((((..............)))))))))..........))).)))))....-- ( -22.24)
>DroPer_CAF1 4246 119 - 1
AAAAUGAAUGGAUUGGCGCCCCAGAAAAAAGGUUACACACACUUAAUACUUGUAGAGAUUACAGUUGAGUGCAUUUCCA-AAGUCAGCACUCGGCACAAUAUAAAUUCAAAAGCCAAGAA
............(((((.................................(((((...)))))(((((((((.......-......))))))))).................)))))... ( -21.32)
>consensus
___________GU__GCGC_UUUGAAAAAAGGUUACACACACCUAAUGCUUAUAGAGAUUACAGUUGAGUGCAUUUCCAAAAGUCAGCACUCGACACAAUAUAAAUUCAAAAGCCAAA__
.................((.((((((...((((.......))))...................(((((((((..............)))))))))..........)))))).))...... (-19.62 = -20.04 +   0.42)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:14 2006