Locus 616

Sequence ID 2L_DroMel_CAF1
Location 1,829,125 – 1,829,230
Length 105
Max. P 0.626849
window1009 window1010

overview

Window 9

Location 1,829,125 – 1,829,230
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 71.71
Mean single sequence MFE -22.34
Consensus MFE -5.27
Energy contribution -6.51
Covariance contribution 1.24
Combinations/Pair 1.29
Mean z-score -1.69
Structure conservation index 0.24
SVM decision value 0.19
SVM RNA-class probability 0.626849
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1829125 105 + 22407834
UGCCAAAUUUAAGCCUCUUACUGCGGAAAAUAGAAGAAAAGGCUGGAAAACAUAGGUAGCUGU-----------UUUUACCAGAGGUUCUUACCUAU----AUCUUUCAUUAAAAUGGAA
..(((......((((((((.(((.......)))))))...)))).((((..((((((((..(.-----------.((.....))..)..))))))))----...)))).......))).. ( -19.50)
>DroSec_CAF1 49158 104 + 1
UGCCAAAUUUAAGCCCCUUUCUACGGAAAAUAGAAGAAAAGGCUGGAAAACAUAGGUACCUCC------------UUUGCAAAGCGUUCUUGCCUAU----AUCUUCUAUUAAAAUGAAA
..................(((....)))(((((((((..((((.((((..((.(((.....))------------).)).......)))).))))..----.)))))))))......... ( -23.00)
>DroSim_CAF1 29721 102 + 1
UGCCAAAUUUAAGCCUCUUUAUACGGAAAAUAGAGGAAAAGUCUGGAAAACAUAAGUAGCUC-------------UUUGCAAAGAGUUCUUGCCUAU----AUCUUCUAUUAA-AUGGAA
..(((.((((...(((((.............)))))..)))).)))......((((.(((((-------------((....))))))))))).....----....(((((...-))))). ( -19.02)
>DroEre_CAF1 37720 85 + 1
UGCCAAAUUUAAGCCU----CUACGGCAAAUAGAAGAAAAGGUUGGAAAACAUAUGUUGUU--------------------------CCUUACCGAU----GUCUUUCAUUGA-AUGGCA
.((((.......(((.----....))).(((..((((...(((.(((((((....))).))--------------------------))..)))...----.))))..)))..-.)))). ( -24.10)
>DroYak_CAF1 14125 119 + 1
UGCCAAAUUUAAGCCUCUUUCUACGAAAAAUAGAAGAAUAGGUUGGAAAACAUAUGUAGUCUUCAUAGAUACAGCUUUGCUGGAUUUUUUAACCUACGUUUUUUUUUUAUUAA-AUGGCA
.((((............((((...))))((((((((((((((((((((((........((((....)))).((((...))))..)))))))))))).....))))))))))..-.)))). ( -26.10)
>consensus
UGCCAAAUUUAAGCCUCUUUCUACGGAAAAUAGAAGAAAAGGCUGGAAAACAUAGGUAGCUC_____________UUUGCAAAA_GUUCUUACCUAU____AUCUUUUAUUAA_AUGGAA
............................(((((((((..((((.((((.......((((.................))))......)))).)))).......)))))))))......... ( -5.27 =  -6.51 +   1.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,829,125 – 1,829,230
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.71
Mean single sequence MFE -21.98
Consensus MFE -3.16
Energy contribution -5.12
Covariance contribution 1.96
Combinations/Pair 1.27
Mean z-score -1.60
Structure conservation index 0.14
SVM decision value 0.14
SVM RNA-class probability 0.604338
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1829125 105 - 22407834
UUCCAUUUUAAUGAAAGAU----AUAGGUAAGAACCUCUGGUAAAA-----------ACAGCUACCUAUGUUUUCCAGCCUUUUCUUCUAUUUUCCGCAGUAAGAGGCUUAAAUUUGGCA
..(((.(((((((.(((((----(((((((.(.....(((......-----------.)))))))))))))))).))(((((((((.(........).)).))))))))))))..))).. ( -24.30)
>DroSec_CAF1 49158 104 - 1
UUUCAUUUUAAUAGAAGAU----AUAGGCAAGAACGCUUUGCAAA------------GGAGGUACCUAUGUUUUCCAGCCUUUUCUUCUAUUUUCCGUAGAAAGGGGCUUAAAUUUGGCA
.........(((((((((.----..((((......((...))...------------(((((.((....))))))).))))..))))))))).(((.......)))(((.......))). ( -23.80)
>DroSim_CAF1 29721 102 - 1
UUCCAU-UUAAUAGAAGAU----AUAGGCAAGAACUCUUUGCAAA-------------GAGCUACUUAUGUUUUCCAGACUUUUCCUCUAUUUUCCGUAUAAAGAGGCUUAAAUUUGGCA
......-......((((((----(((((..((..(((((....))-------------))))).)))))))))))((((.((..(((((.............)))))...)).))))... ( -18.42)
>DroEre_CAF1 37720 85 - 1
UGCCAU-UCAAUGAAAGAC----AUCGGUAAGG--------------------------AACAACAUAUGUUUUCCAACCUUUUCUUCUAUUUGCCGUAG----AGGCUUAAAUUUGGCA
.((((.-..((((.((((.----...(((..((--------------------------((.(((....))))))).)))...)))).)))).(((....----.))).......)))). ( -19.20)
>DroYak_CAF1 14125 119 - 1
UGCCAU-UUAAUAAAAAAAAAACGUAGGUUAAAAAAUCCAGCAAAGCUGUAUCUAUGAAGACUACAUAUGUUUUCCAACCUAUUCUUCUAUUUUUCGUAGAAAGAGGCUUAAAUUUGGCA
.(((((-((((............(((((((........((((...)))).......((((((.......)))))).)))))))((((((((.....)))).))))...)))))..)))). ( -24.20)
>consensus
UUCCAU_UUAAUAAAAGAU____AUAGGUAAGAAC_CCUUGCAAA_____________GAGCUACAUAUGUUUUCCAGCCUUUUCUUCUAUUUUCCGUAGAAAGAGGCUUAAAUUUGGCA
..........................(.((((..........................((((.......))))...((((((((..(((((.....)))))))))))))....)))).). ( -3.16 =  -5.12 +   1.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:05 2006