Locus 636

Sequence ID 3R_DroMel_CAF1
Location 2,351,014 – 2,351,109
Length 95
Max. P 0.932632
window1009 window1010

overview

Window 9

Location 2,351,014 – 2,351,109
Length 95
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 67.19
Mean single sequence MFE -25.16
Consensus MFE -9.86
Energy contribution -10.70
Covariance contribution 0.84
Combinations/Pair 1.07
Mean z-score -2.00
Structure conservation index 0.39
SVM decision value 0.89
SVM RNA-class probability 0.876313
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2351014 95 + 27905053
AUCUAU----GUUAAGCC---CAAGAACACCUG--------------AAGGGCACCGAAAGUACCUUGCAAAACUUUGGCAAAUGACCAACAGCGCUGCGGUGCCGAAGGA-AUACA
......----.....(((---(.((.....)).--------------..)))).((....(((((..(((...(((((((....).)))).))...))))))))....)).-..... ( -21.60)
>DroSec_CAF1 54806 95 + 1
AUCUAU----CUUAUUCC---CAGGAGCAUCUG--------------AAGGGCACCGAAACUACCUUGCAAAACUUUGGCAAAUGACCAACAGCGCUGCGGUGUCGCAGGA-AUACA
......----..((((((---(((......)))--------------...(((((((.......)..(((...(((((((....).)))).))...)))))))))...)))-))).. ( -20.60)
>DroSim_CAF1 55165 116 + 1
AUCCGUUGAUUUGGUGCCCUUCAGGUGUUCUUGGUCAUAAGAUAGAUAAGGGCACCAAAAGUACCUUGCAAAAUUUUGGCAAUUGACCAACAGCGCUGCGGUGCCGCAGGA-AUACA
...(((((.((((((((((((((((....))))(((....)))....)))))))))))).((...((((.........))))...))...)))))(((((....)))))..-..... ( -39.10)
>DroEre_CAF1 57479 79 + 1
---------------------AACC---ACCUU--------------AAGUGCACCGAAAGUAACUUGCAAAAUGUUGGCAAAUGACCAACAGUGCUGCGGUGCCGAAGGAAAUACA
---------------------....---.((((--------------....((((((..........(((...(((((((....).)))))).)))..))))))..))))....... ( -24.80)
>DroYak_CAF1 51186 79 + 1
---------------------CAAG---ACCUU--------------UACAGCACCGAAUGUACCUUGCAAAAUGUUGCCAAAAGACCAAUUGCACUUCGGUGCCUAAGGAAAUACA
---------------------....---.((((--------------....((((((((.((.....((((...(((.......)))...))))))))))))))..))))....... ( -19.70)
>consensus
AUC__U_____U____CC___CAAG___ACCUG______________AAGGGCACCGAAAGUACCUUGCAAAAUUUUGGCAAAUGACCAACAGCGCUGCGGUGCCGAAGGA_AUACA
..................................................(((((((...((.....))......(((((....).))))........)))))))............ ( -9.86 = -10.70 +   0.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 2,351,014 – 2,351,109
Length 95
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 67.19
Mean single sequence MFE -28.24
Consensus MFE -12.78
Energy contribution -13.50
Covariance contribution 0.72
Combinations/Pair 1.12
Mean z-score -2.00
Structure conservation index 0.45
SVM decision value 1.22
SVM RNA-class probability 0.932632
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2351014 95 - 27905053
UGUAU-UCCUUCGGCACCGCAGCGCUGUUGGUCAUUUGCCAAAGUUUUGCAAGGUACUUUCGGUGCCCUU--------------CAGGUGUUCUUG---GGCUUAAC----AUAGAU
((((.-.(((..((((((((((.(((.(((((.....)))))))).))))..(((((.....)))))...--------------..))))))...)---))..).))----)..... ( -28.90)
>DroSec_CAF1 54806 95 - 1
UGUAU-UCCUGCGACACCGCAGCGCUGUUGGUCAUUUGCCAAAGUUUUGCAAGGUAGUUUCGGUGCCCUU--------------CAGAUGCUCCUG---GGAAUAAG----AUAGAU
..(((-(((((.((((((((((.(((.(((((.....)))))))).))))..))).))).)((.((....--------------.....)).)).)---))))))..----...... ( -24.70)
>DroSim_CAF1 55165 116 - 1
UGUAU-UCCUGCGGCACCGCAGCGCUGUUGGUCAAUUGCCAAAAUUUUGCAAGGUACUUUUGGUGCCCUUAUCUAUCUUAUGACCAAGAACACCUGAAGGGCACCAAAUCAACGGAU
.....-..(((((....)))))..((((((((....((((............))))...(((((((((((.....((((......)))).......))))))))))))))))))).. ( -38.40)
>DroEre_CAF1 57479 79 - 1
UGUAUUUCCUUCGGCACCGCAGCACUGUUGGUCAUUUGCCAACAUUUUGCAAGUUACUUUCGGUGCACUU--------------AAGGU---GGUU---------------------
..............((((...((((((..(((.((((((.........)))))).)))..))))))....--------------..)))---)...--------------------- ( -22.60)
>DroYak_CAF1 51186 79 - 1
UGUAUUUCCUUAGGCACCGAAGUGCAAUUGGUCUUUUGGCAACAUUUUGCAAGGUACAUUCGGUGCUGUA--------------AAGGU---CUUG---------------------
.......((((.(((((((((((((.....((....((....))....))...)))).)))))))))...--------------)))).---....--------------------- ( -26.60)
>consensus
UGUAU_UCCUUCGGCACCGCAGCGCUGUUGGUCAUUUGCCAAAAUUUUGCAAGGUACUUUCGGUGCCCUU______________CAGGU___CCUG___GG____A_____A__GAU
............((((((((((.....(((((.....)))))....))))..((.....)))))))).................................................. (-12.78 = -13.50 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:02 2006