Locus 5793

Sequence ID 2L_DroMel_CAF1
Location 16,411,027 – 16,411,124
Length 97
Max. P 0.569340
window9186 window9187

overview

Window 6

Location 16,411,027 – 16,411,124
Length 97
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.18
Mean single sequence MFE -21.08
Consensus MFE -10.42
Energy contribution -9.79
Covariance contribution -0.64
Combinations/Pair 1.38
Mean z-score -2.19
Structure conservation index 0.49
SVM decision value 0.05
SVM RNA-class probability 0.560982
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16411027 97 + 22407834
CUUUAGCGCAUU--UC-UU-UUUCUAAUUGUAAGCGGAUAUUUAUUCUCCAUCAUUUCCGCUCAUUUGAAUUUUUUCGCCCCACUCGGACGGGAAAAGGAA
...........(--((-((-(((((.......((((((..................))))))..............((((......)).)))))))))))) ( -18.57)
>DroSec_CAF1 35347 98 + 1
CUUUAGCGCAUU--UCCUUUUUUCUAAUUGUAAGCGGAUAUUUAUUCUCCAUCAUUUCCGCUCAUUUGAAUUUUUUCGCCCCACUUGGGCG-GAAAAGGAA
...........(--(((....(((.((.((..((((((..................)))))))).))))).((((((((((.....)))))-))))))))) ( -24.67)
>DroSim_CAF1 34978 97 + 1
CUUUAGCGCAUU--UCCUU-UUUCUAAUUGUAAGCGGAUAUUUAUUCUCCAUCAUUUCCGCUCAUUUGAAUUUUUUCGCCCCACUUGGGCG-GAAAAGGAA
...........(--(((((-((((........((((((..................)))))).....(((....)))((((.....)))))-))))))))) ( -25.57)
>DroEre_CAF1 31002 97 + 1
CUUUAGCUCGAUACUC-UU-UGUCUAAUUGUAAGCGGAUAUUUGUUCUCCAUCUUUUCCGCUCAUUUGAAUUUUCUCGCCCCACUUGGGUG-GGA-AGGAA
..((((..(((.....-.)-)).)))).....((((((....((.....)).....))))))........(((((((((((.....)))))-)))-))).. ( -24.10)
>DroYak_CAF1 36393 96 + 1
CUUUAGCUCAUU--UC-UU-UGUCUAAUUGUAAGCGGAUAUUUAUUCUCCAUCAUUUCCGCUCAUUUGAAUUUUUUCGGCCCUCUUGGAUG-GAAAAGGAA
...........(--((-((-(.((((......((((((..................))))))...(((((....))))).((....)).))-)).)))))) ( -15.47)
>DroAna_CAF1 30383 78 + 1
--------------------UUUCUUAUUGUCGGCGGAUAUUUAUUUCCCAUAAUUUCCGCUCAUUUUAAUUUUCCCU-CGUACUCCC--GGGGAUGGCUA
--------------------.........(((((((((...((((.....))))..))))))...........((((.-((......)--))))).))).. ( -18.10)
>consensus
CUUUAGCGCAUU__UC_UU_UUUCUAAUUGUAAGCGGAUAUUUAUUCUCCAUCAUUUCCGCUCAUUUGAAUUUUUUCGCCCCACUUGGGCG_GAAAAGGAA
................................((((((..................))))))........((((((((.((.....)).)).))))))... (-10.42 =  -9.79 +  -0.64)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,411,027 – 16,411,124
Length 97
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.18
Mean single sequence MFE -21.62
Consensus MFE -10.94
Energy contribution -11.55
Covariance contribution 0.61
Combinations/Pair 1.22
Mean z-score -2.14
Structure conservation index 0.51
SVM decision value 0.07
SVM RNA-class probability 0.569340
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16411027 97 - 22407834
UUCCUUUUCCCGUCCGAGUGGGGCGAAAAAAUUCAAAUGAGCGGAAAUGAUGGAGAAUAAAUAUCCGCUUACAAUUAGAAA-AA-GA--AAUGCGCUAAAG
(((.(((((.(((((.....)))))............((((((((.((............)).))))))))......))))-).-))--)........... ( -21.40)
>DroSec_CAF1 35347 98 - 1
UUCCUUUUC-CGCCCAAGUGGGGCGAAAAAAUUCAAAUGAGCGGAAAUGAUGGAGAAUAAAUAUCCGCUUACAAUUAGAAAAAAGGA--AAUGCGCUAAAG
((((((((.-(((((.....)))))............((((((((.((............)).)))))))).........)))))))--)........... ( -26.90)
>DroSim_CAF1 34978 97 - 1
UUCCUUUUC-CGCCCAAGUGGGGCGAAAAAAUUCAAAUGAGCGGAAAUGAUGGAGAAUAAAUAUCCGCUUACAAUUAGAAA-AAGGA--AAUGCGCUAAAG
((((((((.-(((((.....)))))............((((((((.((............)).))))))))........))-)))))--)........... ( -26.90)
>DroEre_CAF1 31002 97 - 1
UUCCU-UCC-CACCCAAGUGGGGCGAGAAAAUUCAAAUGAGCGGAAAAGAUGGAGAACAAAUAUCCGCUUACAAUUAGACA-AA-GAGUAUCGAGCUAAAG
.....-.((-(((....)))))((..((..((((...((((((((.....((.....))....))))))))(.....)...-..-)))).))..))..... ( -21.50)
>DroYak_CAF1 36393 96 - 1
UUCCUUUUC-CAUCCAAGAGGGCCGAAAAAAUUCAAAUGAGCGGAAAUGAUGGAGAAUAAAUAUCCGCUUACAAUUAGACA-AA-GA--AAUGAGCUAAAG
.(((((((.-.....)))))))...............((((((((.((............)).))))))))...((((...-.(-..--..)...)))).. ( -16.10)
>DroAna_CAF1 30383 78 - 1
UAGCCAUCCCC--GGGAGUACG-AGGGAAAAUUAAAAUGAGCGGAAAUUAUGGGAAAUAAAUAUCCGCCGACAAUAAGAAA--------------------
......(((((--(......))-.)))).........((.(((((..((((.....))))...)))))))...........-------------------- ( -16.90)
>consensus
UUCCUUUUC_CGCCCAAGUGGGGCGAAAAAAUUCAAAUGAGCGGAAAUGAUGGAGAAUAAAUAUCCGCUUACAAUUAGAAA_AA_GA__AAUGCGCUAAAG
....(((((...(((....)))..)))))........((((((((.((............)).)))))))).............................. (-10.94 = -11.55 +   0.61)

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 11:53:02 2006