Locus 410

Sequence ID 3R_DroMel_CAF1
Location 1,531,730 – 1,531,823
Length 93
Max. P 0.991862
window671 window672

overview

Window 1

Location 1,531,730 – 1,531,823
Length 93
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 69.74
Mean single sequence MFE -27.83
Consensus MFE -11.36
Energy contribution -12.04
Covariance contribution 0.68
Combinations/Pair 1.12
Mean z-score -2.53
Structure conservation index 0.41
SVM decision value 2.29
SVM RNA-class probability 0.991862
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1531730 93 + 27905053
ACAAUUAGUUGUGGUCCACACUAA------------UGUAUCUACGAGAUAUAUACAUGUGUGUGUGUGUGAGUUCGCGAACGCAUCUGAUGGACAGCUGCAUCA
.......((.((.(((((.....(------------((((((.....))))))).((.((((((...((((....)))).)))))).)).))))).)).)).... ( -26.80)
>DroPse_CAF1 32366 71 + 1
ACAAUUAGUUGU-----------A------------UGUAUCUUCGGGAUACAUACAUACAU----------AUACG-AAACGCAUCUGACAGACAGCUGCAUGC
.......(((((-----------(------------((((((.....)))))))))).))..----------.....-....(((.(((.....))).))).... ( -19.30)
>DroSec_CAF1 33311 93 + 1
ACAAUUAGUUGUGGUCCACACUAA------------UGUAUCUGCGAGAUACAUACAUGUGCGUGUGUGUGAGUGCGCGAACGCAUCUGACGGACAGCUGCAUCC
.......((.((.((((......(------------((((((.....))))))).((.((((((.(((((....))))).)))))).))..)))).)).)).... ( -31.50)
>DroSim_CAF1 31573 93 + 1
ACAAUUAGUUGUGGUCCACACUAA------------UGUAUCUGCGAGAUACAUACAUGUGCGUGUGUGUGAGUGCGCGAACGCAUCUGACGGACAGCUGCAUCC
.......((.((.((((......(------------((((((.....))))))).((.((((((.(((((....))))).)))))).))..)))).)).)).... ( -31.50)
>DroEre_CAF1 32782 70 + 1
ACAAUUAAA---------------------------UGUAUCUUUGGGAUGUAUCU--------UUGUGUGUGUGCGAGAACGCAUCUGACGGACAGCUGCAUCC
.........---------------------------..........(((((((...--------((((.((((((((....)))))...))).)))).))))))) ( -17.80)
>DroYak_CAF1 29318 93 + 1
ACAAUUAGAUGUGGUCCACACGGAUGUAUGUACAUAUGUAUCUUUGGGAUACA------------UGUGUGCGUGCGAGAACGCAUCUGACGGACAGCUGCAUCC
.(..(((((((((((((....))))(((((((((((((((((.....))))))------------))))))))))).....)))))))))..)............ ( -40.10)
>consensus
ACAAUUAGUUGUGGUCCACACUAA____________UGUAUCUUCGAGAUACAUACAUGUG___GUGUGUGAGUGCGCGAACGCAUCUGACGGACAGCUGCAUCC
................(((((...............((((((.....)))))).............)))))...........(((.(((.....))).))).... (-11.36 = -12.04 +   0.68)

alignment

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secondary structure

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dotplot

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Window 2

Location 1,531,730 – 1,531,823
Length 93
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 69.74
Mean single sequence MFE -21.40
Consensus MFE -13.23
Energy contribution -14.99
Covariance contribution 1.76
Combinations/Pair 1.05
Mean z-score -1.35
Structure conservation index 0.62
SVM decision value 0.67
SVM RNA-class probability 0.818473
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1531730 93 - 27905053
UGAUGCAGCUGUCCAUCAGAUGCGUUCGCGAACUCACACACACACACAUGUAUAUAUCUCGUAGAUACA------------UUAGUGUGGACCACAACUAAUUGU
.((((((.(((.....))).))))))..............(((((..((((((.(((...))).)))))------------)..)))))................ ( -18.80)
>DroPse_CAF1 32366 71 - 1
GCAUGCAGCUGUCUGUCAGAUGCGUUU-CGUAU----------AUGUAUGUAUGUAUCCCGAAGAUACA------------U-----------ACAACUAAUUGU
..(((((.(((.....))).)))))..-.....----------.....((((((((((.....))))))------------)-----------)))......... ( -19.00)
>DroSec_CAF1 33311 93 - 1
GGAUGCAGCUGUCCGUCAGAUGCGUUCGCGCACUCACACACACGCACAUGUAUGUAUCUCGCAGAUACA------------UUAGUGUGGACCACAACUAAUUGU
((((......))))(((.((((((....)))).)).......(((((....(((((((.....))))))------------)..))))))))............. ( -26.30)
>DroSim_CAF1 31573 93 - 1
GGAUGCAGCUGUCCGUCAGAUGCGUUCGCGCACUCACACACACGCACAUGUAUGUAUCUCGCAGAUACA------------UUAGUGUGGACCACAACUAAUUGU
((((......))))(((.((((((....)))).)).......(((((....(((((((.....))))))------------)..))))))))............. ( -26.30)
>DroEre_CAF1 32782 70 - 1
GGAUGCAGCUGUCCGUCAGAUGCGUUCUCGCACACACACAA--------AGAUACAUCCCAAAGAUACA---------------------------UUUAAUUGU
(((((((.(((.....))).)))))))..........((((--------((((..(((.....)))..)---------------------------)))..)))) ( -11.60)
>DroYak_CAF1 29318 93 - 1
GGAUGCAGCUGUCCGUCAGAUGCGUUCUCGCACGCACACA------------UGUAUCCCAAAGAUACAUAUGUACAUACAUCCGUGUGGACCACAUCUAAUUGU
((((......))))...(((((.(.((.((((((.....(------------((((((.....)))))))((((....)))).)))))))).).)))))...... ( -26.40)
>consensus
GGAUGCAGCUGUCCGUCAGAUGCGUUCGCGCACUCACACAC___CACAUGUAUGUAUCCCGAAGAUACA____________UUAGUGUGGACCACAACUAAUUGU
(((((((.(((.....))).))))))).......(((((.............((((((.....))))))...............)))))................ (-13.23 = -14.99 +   1.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:31 2006