Locus 4206

Sequence ID 2L_DroMel_CAF1
Location 12,050,433 – 12,050,545
Length 112
Max. P 0.973190
window6647 window6648

overview

Window 7

Location 12,050,433 – 12,050,545
Length 112
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 79.32
Mean single sequence MFE -45.45
Consensus MFE -28.54
Energy contribution -29.48
Covariance contribution 0.95
Combinations/Pair 1.17
Mean z-score -1.91
Structure conservation index 0.63
SVM decision value 0.75
SVM RNA-class probability 0.840811
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12050433 112 + 22407834
-----GACUAAAGCGGCCAGCAAAGAGGAGGAGCAGGAGCAGUACUGGGUGGCCAACGGAGGAGCCACCGAGGUUGUGGCUGCCAUUGAGCCCAGGCAGGGCCUGAGCACCCAGUGG
-----.......(((((((.(((.........((....))....((.(((((((.......).)))))).)).))))))))))(((((.((.(((((...))))).))...))))). ( -42.80)
>DroSec_CAF1 4596 112 + 1
-----GACUAAAGCGGCCACCAAAGAGGAGGAGCAGGAGCAGUACUGGGUGGCCAAUGGAGGAGCCACCGAGGUUGUGGCUGCCAUUGAGCCCAGGCAGGGCCUGAGCACCCAGUGG
-----.......((..((.((.....)).)).))........(((((((((((((((((...((((((.......)))))).)))))).)))(((((...)))))...)))))))). ( -48.40)
>DroSim_CAF1 4639 112 + 1
-----GACUAAAGCGGCCACCAAAGAGGAGGAGCAGGAGCAGUACUGGGUGGCCAAUGGAGGAGCCACCGAGGUUGUGGCUGCCAUUGAGCCCAGGCAGGGCCUGAGCACCCAGUGG
-----.......((..((.((.....)).)).))........(((((((((((((((((...((((((.......)))))).)))))).)))(((((...)))))...)))))))). ( -48.40)
>DroEre_CAF1 4609 109 + 1
-----GACCAAAUCGGACACCAGUGAGGUGGAGCAGAA---GUACUGGGUGGCCAAUGGAGGAGCCACCGAGGUUGUGGCUGCCAUUGAGCCACGAAAGGGUCUGAAUACCCAGUGG
-----..((.....))...(((.((.((((...((((.---...((..(((((((((((...((((((.......)))))).)))))).)))))...))..))))..)))))).))) ( -45.40)
>DroYak_CAF1 4656 109 + 1
-----UACCAAGACGGCCACCCGUAAGGUGGAGCAGGA---GUACUGGGUGGCCAAUGGAGGAGCCACCGAGGUUGUGGCUGCCAUUCAGCCAAGCCAGGGCCUGACCACCCAGUGG
-----..(((..((((....))))..(((((..((((.---...((((.((((.(((((...((((((.......)))))).)))))..))))..))))..)))).)))))...))) ( -47.20)
>DroPer_CAF1 4368 108 + 1
UCGCUGGCUAAGUCGACCA---AGCCGCCGUCGUCGCGCCAGUACUGGGUGGCCAACGAGGGUACUGCCGAAAUUGUGGCCGCCAUUCAGCCAAG------CCUCUCCACCCAGUGG
..((((((...(.((((..---.......)))).)..))))))(((((((((.....((((.(...((((......)))).((......))..).------)))).))))))))).. ( -40.50)
>consensus
_____GACUAAAGCGGCCACCAAAGAGGAGGAGCAGGAGCAGUACUGGGUGGCCAAUGGAGGAGCCACCGAGGUUGUGGCUGCCAUUGAGCCAAGGCAGGGCCUGAGCACCCAGUGG
..........................................(((((((((..((((((...((((((.......)))))).)))))).(((.......))).....))))))))). (-28.54 = -29.48 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 12,050,433 – 12,050,545
Length 112
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.32
Mean single sequence MFE -45.33
Consensus MFE -30.53
Energy contribution -31.37
Covariance contribution 0.84
Combinations/Pair 1.19
Mean z-score -2.89
Structure conservation index 0.67
SVM decision value 1.71
SVM RNA-class probability 0.973190
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12050433 112 - 22407834
CCACUGGGUGCUCAGGCCCUGCCUGGGCUCAAUGGCAGCCACAACCUCGGUGGCUCCUCCGUUGGCCACCCAGUACUGCUCCUGCUCCUCCUCUUUGCUGGCCGCUUUAGUC-----
..(((((((((((((((...))))))))(((((((.((((((.......))))))...)))))))..)))))))...((.((.((...........)).))..)).......----- ( -45.00)
>DroSec_CAF1 4596 112 - 1
CCACUGGGUGCUCAGGCCCUGCCUGGGCUCAAUGGCAGCCACAACCUCGGUGGCUCCUCCAUUGGCCACCCAGUACUGCUCCUGCUCCUCCUCUUUGGUGGCCGCUUUAGUC-----
..(((((((((((((((...))))))))(((((((.((((((.......))))))...)))))))..)))))))...(((...((.((.((.....)).))..))...))).----- ( -48.20)
>DroSim_CAF1 4639 112 - 1
CCACUGGGUGCUCAGGCCCUGCCUGGGCUCAAUGGCAGCCACAACCUCGGUGGCUCCUCCAUUGGCCACCCAGUACUGCUCCUGCUCCUCCUCUUUGGUGGCCGCUUUAGUC-----
..(((((((((((((((...))))))))(((((((.((((((.......))))))...)))))))..)))))))...(((...((.((.((.....)).))..))...))).----- ( -48.20)
>DroEre_CAF1 4609 109 - 1
CCACUGGGUAUUCAGACCCUUUCGUGGCUCAAUGGCAGCCACAACCUCGGUGGCUCCUCCAUUGGCCACCCAGUAC---UUCUGCUCCACCUCACUGGUGUCCGAUUUGGUC-----
(((((((((.....((.....))..(((.((((((.((((((.......))))))...))))))))))))))))..---........((((.....))))........))..----- ( -39.00)
>DroYak_CAF1 4656 109 - 1
CCACUGGGUGGUCAGGCCCUGGCUUGGCUGAAUGGCAGCCACAACCUCGGUGGCUCCUCCAUUGGCCACCCAGUAC---UCCUGCUCCACCUUACGGGUGGCCGUCUUGGUA-----
..(((((((((((.((((.......)))).(((((.((((((.......))))))...))))))))))))))))..---.((.((.(((((.....)))))..))...))..----- ( -48.30)
>DroPer_CAF1 4368 108 - 1
CCACUGGGUGGAGAGG------CUUGGCUGAAUGGCGGCCACAAUUUCGGCAGUACCCUCGUUGGCCACCCAGUACUGGCGCGACGACGGCGGCU---UGGUCGACUUAGCCAGCGA
..(((((((((.((((------....(((((((((...)))....)))))).....)))).....))))))))).(((((.((((.(.(....).---).)))).....)))))... ( -43.30)
>consensus
CCACUGGGUGCUCAGGCCCUGCCUGGGCUCAAUGGCAGCCACAACCUCGGUGGCUCCUCCAUUGGCCACCCAGUACUGCUCCUGCUCCUCCUCUUUGGUGGCCGCUUUAGUC_____
..(((((((...((((.....))))(((.((((((.((((((.......))))))...))))))))))))))))........................................... (-30.53 = -31.37 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:24 2006