Locus 6019

Sequence ID X_DroMel_CAF1
Location 15,448,950 – 15,449,042
Length 92
Max. P 0.999404
window9783 window9784

overview

Window 3

Location 15,448,950 – 15,449,042
Length 92
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 75.16
Mean single sequence MFE -21.66
Consensus MFE -6.13
Energy contribution -6.13
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.80
Structure conservation index 0.28
SVM decision value 3.05
SVM RNA-class probability 0.998258
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15448950 92 + 22224390
AUUAUUUUUAUUUUUUUUUCAGGUUGCUGGCGCCAGUGCAAUUG------------CA------AUUGCAAUUGACUCUAUAUAGAUAGUAUA--CAUAUAUGUACAUAUAU
(((((((.(((..............((((....)))).((((((------------(.------...))))))).....))).)))))))...--.((((((....)))))) ( -16.30)
>DroSec_CAF1 9592 79 + 1
AU------------UUUUUCAGGUUGCUGGCGCCAGUGCAAUUG------------CA------AUUGCAAUUGACUCUAUAUAGAUU-UGUA--AGCGAGUCUACAUAUAU
..------------...........((((....)))).((((((------------(.------...)))))))....(((.((((((-((..--..)))))))).)))... ( -20.40)
>DroSim_CAF1 9666 85 + 1
AU------------UUUUUCAGGUUGCUGGCGCCAGUGCAAUUG------------CAAUUGCAAUUGCAAUUGACUCUAUAUAGAUU-UGUA--AGCGAGUCUACAUAUAU
..------------....((((...((((....))))(((((((------------(....))))))))..))))...(((.((((((-((..--..)))))))).)))... ( -25.50)
>DroEre_CAF1 12217 74 + 1
AUU--------U---UUUUCAGGUUGCUGGCGCCAGUGCAAUUG------------CA------AUUGCAAUUGCCUCUGUAUAGAUU-UGU--------AUAUAUAUAAAU
...--------.---....((((..((((....))))(((((((------------(.------...)))))))).)))).....(((-(((--------(....))))))) ( -18.50)
>DroYak_CAF1 9900 97 + 1
AUU--------UUUUUUUUCAGGUUGCUGGCGCCAGUGCAAUUGCCAUUGCAAUUGCA------AUUGCCAUUGCCUCUAUAUAGAUU-UGUAUAUUUGUAUAUACAUAUAU
...--------.........((((...(((((....(((((((((....)))))))))------..)))))..)))).(((((((((.-.....)))))))))......... ( -27.60)
>consensus
AUU________U__UUUUUCAGGUUGCUGGCGCCAGUGCAAUUG____________CA______AUUGCAAUUGACUCUAUAUAGAUU_UGUA__AGCGAAUAUACAUAUAU
.........................((((....))))(((((......................)))))........................................... ( -6.13 =  -6.13 +  -0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 15,448,950 – 15,449,042
Length 92
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 75.16
Mean single sequence MFE -19.16
Consensus MFE -5.39
Energy contribution -5.23
Covariance contribution -0.16
Combinations/Pair 1.09
Mean z-score -3.10
Structure conservation index 0.28
SVM decision value 3.57
SVM RNA-class probability 0.999404
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15448950 92 - 22224390
AUAUAUGUACAUAUAUG--UAUACUAUCUAUAUAGAGUCAAUUGCAAU------UG------------CAAUUGCACUGGCGCCAGCAACCUGAAAAAAAAAUAAAAAUAAU
((((((((....)))))--))).((((....))))((((((((((...------.)------------)))))).))).((....))......................... ( -15.80)
>DroSec_CAF1 9592 79 - 1
AUAUAUGUAGACUCGCU--UACA-AAUCUAUAUAGAGUCAAUUGCAAU------UG------------CAAUUGCACUGGCGCCAGCAACCUGAAAAA------------AU
...((((((((......--....-..)))))))).((((((((((...------.)------------)))))).))).((....))...........------------.. ( -16.50)
>DroSim_CAF1 9666 85 - 1
AUAUAUGUAGACUCGCU--UACA-AAUCUAUAUAGAGUCAAUUGCAAUUGCAAUUG------------CAAUUGCACUGGCGCCAGCAACCUGAAAAA------------AU
...((((((((......--....-..))))))))..((((..(((((((((....)------------)))))))).))))..(((....))).....------------.. ( -21.80)
>DroEre_CAF1 12217 74 - 1
AUUUAUAUAUAU--------ACA-AAUCUAUACAGAGGCAAUUGCAAU------UG------------CAAUUGCACUGGCGCCAGCAACCUGAAAA---A--------AAU
............--------...-........(((..((((((((...------.)------------))))))).(((....)))....)))....---.--------... ( -16.80)
>DroYak_CAF1 9900 97 - 1
AUAUAUGUAUAUACAAAUAUACA-AAUCUAUAUAGAGGCAAUGGCAAU------UGCAAUUGCAAUGGCAAUUGCACUGGCGCCAGCAACCUGAAAAAAAA--------AAU
.....(((((((....)))))))-...........(((...((((.(.------(((((((((....))))))))).)...))))....))).........--------... ( -24.90)
>consensus
AUAUAUGUAGAUACACU__UACA_AAUCUAUAUAGAGUCAAUUGCAAU______UG____________CAAUUGCACUGGCGCCAGCAACCUGAAAAA__A________AAU
................................(((........(((((......................))))).(((....)))....)))................... ( -5.39 =  -5.23 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:13 2006