Locus 10325

Sequence ID 3R_DroMel_CAF1
Location 27,728,566 – 27,728,674
Length 108
Max. P 0.686255
window16435 window16436

overview

Window 5

Location 27,728,566 – 27,728,661
Length 95
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.29
Mean single sequence MFE -22.90
Consensus MFE -17.33
Energy contribution -17.05
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -1.37
Structure conservation index 0.76
SVM decision value 0.05
SVM RNA-class probability 0.560978
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27728566 95 - 27905053
UAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGUGGUCGCUUCAAUAUAAAUGCAGUUACAAAUGGUAGACG--C---CUCCU--------------------
.........((((..(((((....))))).........(((((.....)))))))))............((..((((.....))))..)--)---.....-------------------- ( -18.40)
>DroGri_CAF1 49465 94 - 1
UAUCUGCGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAAUGAUG-CCU--C---AUCCC--------------------
...((((..((((..(((((....))))).........(((((.....)))))))))....((....))))))........((((-...--)---)))..-------------------- ( -19.90)
>DroWil_CAF1 48152 94 - 1
UAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAAUGGCUGCCA--U---AUGC---------------------
....((((.((((..(((((....))))).........(((((.....)))))))))............(((((((....)))))))))--)---)...--------------------- ( -25.00)
>DroMoj_CAF1 49998 94 - 1
UAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAAUGAUG-CCG--A---CAGAC--------------------
..(((((.(((((..(((((....))))).........(((((.....)))))))))............(((...........))-).)--)---)))).-------------------- ( -23.20)
>DroAna_CAF1 43089 94 - 1
UAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUUAAUAUAAAUGCAGUUGCGAAUGUCG-GCC--C---GCCCU--------------------
........(((((...(((((((..............((((((.....))))))...........))))))).)))))......(-(..--.---.))..-------------------- ( -22.01)
>DroPer_CAF1 48321 120 - 1
UAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAAUGGCACAGUUUCGUACUCCCUCUCCGCAUACUGAGAUCGG
...((((((((((..(((((....))))).........(((((.....))))))))).............((........)))))))).........((.((((........))))..)) ( -28.90)
>consensus
UAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAAUGGCG_CCG__C___CUCCC____________________
...((((..((((..(((((....))))).........(((((.....)))))))))....((....))))))............................................... (-17.33 = -17.05 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 6

Location 27,728,581 – 27,728,674
Length 93
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.27
Mean single sequence MFE -24.51
Consensus MFE -20.86
Energy contribution -20.17
Covariance contribution -0.69
Combinations/Pair 1.23
Mean z-score -1.72
Structure conservation index 0.85
SVM decision value 0.32
SVM RNA-class probability 0.686255
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27728581 93 - 27905053
---------------------------UGUUUUGCAUGUUUAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGUGGUCGCUUCAAUAUAAAUGCAGUUACAAA
---------------------------(((.((((((...(((.((...((((..(((((....))))).........(((((.....)))))))))..)))))...))))))..))).. ( -23.50)
>DroVir_CAF1 49083 93 - 1
---------------------------AGUUCUGUCUGCUUAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAA
---------------------------.((.((((..((........))((((..(((((....))))).........(((((.....)))))))))............))))..))... ( -22.80)
>DroGri_CAF1 49479 93 - 1
---------------------------AGUUCUGUUUGUUUAUCUGCGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAA
---------------------------.((.((((..((((((......((((..(((((....))))).........(((((.....)))))))))......))))))))))..))... ( -23.00)
>DroMoj_CAF1 50012 93 - 1
---------------------------CGUUCUGUUUGCUUAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAA
---------------------------.((.((((..((........))((((..(((((....))))).........(((((.....)))))))))............))))..))... ( -22.90)
>DroAna_CAF1 43103 93 - 1
---------------------------AGUUUUGUAUGUUUAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUUAAUAUAAAUGCAGUUGCGAA
---------------------------....((((((((......(((((......)))))....)))))))).....(((((.....)))))((((..................)))). ( -22.47)
>DroPer_CAF1 48361 120 - 1
GCGGGGAGUCGAGGGGCGUCGCGGGAGUUUUCUGUGUGUUUAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAA
(((.(((......(((((.(((((((...)))))))))))).))).)))((((..(((((....))))).........(((((.....)))))))))....................... ( -32.40)
>consensus
___________________________AGUUCUGUAUGUUUAUCUGUGCGCGAAAAUGCAUUUUUGCAUACAACAUAACCGCAACAGAUGCGGUCGCUUCAAUAUAAAUGCAGUUACAAA
............................((.((((..((........))((((..(((((....))))).........(((((.....)))))))))............))))..))... (-20.86 = -20.17 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:07 2006