Locus 2732

Sequence ID 3R_DroMel_CAF1
Location 7,325,958 – 7,326,078
Length 120
Max. P 0.843946
window4442 window4443

overview

Window 2

Location 7,325,958 – 7,326,078
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.74
Mean single sequence MFE -43.48
Consensus MFE -36.00
Energy contribution -36.80
Covariance contribution 0.80
Combinations/Pair 1.11
Mean z-score -1.41
Structure conservation index 0.83
SVM decision value 0.15
SVM RNA-class probability 0.608223
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7325958 120 + 27905053
GGAGUGUGUGGAUGAGUGCUCCUUACGUAGCGUAAGGGCUGUUACGUAAGCCAAGGACCUGCUCGCUCCGCGGAAAAGGACACAAACGCAACGCGCUCGAAUGCGUUACGUUGCGCAUGA
.(((((((((((((((((.((((((((((((((....)).)))))))).....)))).).))))).)))(((..............))).))))))))..((((((......)))))).. ( -44.14)
>DroSec_CAF1 2288 120 + 1
GGAGUGUGGGGAUGAGUGCUCCUUACGUAGCGUAAGGGCUGUUACGUAAGCCAAGGACCUGCUCUCCCCGCGGAAAAGGACACAAACGCAACGCGCUCGAAUGCGUUACGUUGCGCAUGA
.(((((((((((.(((((.((((((((((((((....)).)))))))).....)))).).)))))))))(((..............)))...))))))..((((((......)))))).. ( -46.44)
>DroSim_CAF1 6046 120 + 1
GAAGUGUGGGGAUGAGUGCUCCUUACGUAGCGUAAGGGCUGUUACGUAAGCCAAGGACCUGCUCGCCCCGCGGAAAAGGACACAAACGCAACGCGCUCGAAUGCGUUACGUUGCGCAUGA
....(((((((.((((((.((((((((((((((....)).)))))))).....)))).).))))))))))))..........((..((((((((((......)))...)))))))..)). ( -45.10)
>DroEre_CAF1 6020 116 + 1
GGAGUGUGGGGAUGAGUGCUACUUACGUAGCGUAAGGACUGUUACGUAAGCCACAGACCUGC---C-CCGCGGAAAAGGACACAAACGCAACGCGCUCGAAUGCGUUACGUUGCGCAUGA
.((((((((((......(((((....)))))...(((.((((..(....)..)))).))).)---)-))(((..............)))...))))))..((((((......)))))).. ( -42.24)
>DroYak_CAF1 6189 117 + 1
GGAGUGUGGGGAUGAGUACUCUUUACGUAGCGUAAGGGCUGUUACGUAAGCCAAGGACCUGC---CCCCGCGGAAGAGGACACAAACGCAACGCGCUCGAAUGCGUUACGUUGCGCAUGA
.(((((((..(.((.((.((((((.....(((...((((.(((.(....).....)))..))---)).))).)))))).)).))....)..)))))))..((((((......)))))).. ( -39.50)
>consensus
GGAGUGUGGGGAUGAGUGCUCCUUACGUAGCGUAAGGGCUGUUACGUAAGCCAAGGACCUGCUC_CCCCGCGGAAAAGGACACAAACGCAACGCGCUCGAAUGCGUUACGUUGCGCAUGA
.((((((((((..((((.((.((((((((((((....)).))))))))))....))....))))..)))(((..............)))..)))))))..((((((......)))))).. (-36.00 = -36.80 +   0.80)

alignment

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secondary structure

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dotplot

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Window 3

Location 7,325,958 – 7,326,078
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.74
Mean single sequence MFE -42.18
Consensus MFE -32.78
Energy contribution -33.46
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -2.14
Structure conservation index 0.78
SVM decision value 0.76
SVM RNA-class probability 0.843946
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7325958 120 - 27905053
UCAUGCGCAACGUAACGCAUUCGAGCGCGUUGCGUUUGUGUCCUUUUCCGCGGAGCGAGCAGGUCCUUGGCUUACGUAACAGCCCUUACGCUACGUAAGGAGCACUCAUCCACACACUCC
....((((((((((((((........)))))))).))))))........(.(((..(((.((((.....))))........(((((((((...))))))).)).))).))).)....... ( -38.90)
>DroSec_CAF1 2288 120 - 1
UCAUGCGCAACGUAACGCAUUCGAGCGCGUUGCGUUUGUGUCCUUUUCCGCGGGGAGAGCAGGUCCUUGGCUUACGUAACAGCCCUUACGCUACGUAAGGAGCACUCAUCCCCACACUCC
....((((((((((((((........)))))))).))))))........(.((((((((.((((.....))))........(((((((((...))))))).)).))).))))).)..... ( -45.20)
>DroSim_CAF1 6046 120 - 1
UCAUGCGCAACGUAACGCAUUCGAGCGCGUUGCGUUUGUGUCCUUUUCCGCGGGGCGAGCAGGUCCUUGGCUUACGUAACAGCCCUUACGCUACGUAAGGAGCACUCAUCCCCACACUUC
....((((((((((((((........)))))))).))))))........(.((((.(((.((((.....))))........(((((((((...))))))).)).)))..)))).)..... ( -42.30)
>DroEre_CAF1 6020 116 - 1
UCAUGCGCAACGUAACGCAUUCGAGCGCGUUGCGUUUGUGUCCUUUUCCGCGG-G---GCAGGUCUGUGGCUUACGUAACAGUCCUUACGCUACGUAAGUAGCACUCAUCCCCACACUCC
....((((((((((((((........)))))))).))))))........(.((-(---(.(((.((((.((....)).)))).)))...(((((....)))))......)))).)..... ( -45.10)
>DroYak_CAF1 6189 117 - 1
UCAUGCGCAACGUAACGCAUUCGAGCGCGUUGCGUUUGUGUCCUCUUCCGCGGGG---GCAGGUCCUUGGCUUACGUAACAGCCCUUACGCUACGUAAAGAGUACUCAUCCCCACACUCC
....((((((((((((((........)))))))).))))))........(.((((---(..(((.(((...((((((...(((......))))))))).))).)))..))))).)..... ( -39.40)
>consensus
UCAUGCGCAACGUAACGCAUUCGAGCGCGUUGCGUUUGUGUCCUUUUCCGCGGGG_GAGCAGGUCCUUGGCUUACGUAACAGCCCUUACGCUACGUAAGGAGCACUCAUCCCCACACUCC
....((((((((((((((........)))))))).))))))........(.((((...(.((((.....)))).)......(((((((((...))))))).))......)))).)..... (-32.78 = -33.46 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:33 2006