Locus 6597

Sequence ID 2R_DroMel_CAF1
Location 20,639,050 – 20,639,145
Length 95
Max. P 0.926696
window10497 window10498

overview

Window 7

Location 20,639,050 – 20,639,145
Length 95
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 83.74
Mean single sequence MFE -26.30
Consensus MFE -15.02
Energy contribution -16.19
Covariance contribution 1.17
Combinations/Pair 1.14
Mean z-score -2.96
Structure conservation index 0.57
SVM decision value 0.10
SVM RNA-class probability 0.584988
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20639050 95 + 20766785
CUAUUUGUGGGUGGUCGCUUAUGCCAAGAAAUUU-UAAUUCUUCUUAUAGUCUCUUGGCAACGCGCCCUUAACGCUUU---UUAUGCGUUUUCCGACGU
......((.((.((.(((...((((((((.(((.-(((......))).))).))))))))..))).))..(((((...---....)))))..)).)).. ( -28.20)
>DroSec_CAF1 90000 92 + 1
GUAGUUGUGGG---UCGCUUAUGCCAAGAAAUUU-UAAUUCUUCUUAUAGUCUCUUGGCAACGCGCCCUUAACGCUUU---UUAUGCGUUUUCCGACGU
...((((.(((---.(((...((((((((.(((.-(((......))).))).))))))))..))))))..(((((...---....)))))...)))).. ( -30.30)
>DroSim_CAF1 90921 92 + 1
GUAGUUGUGGG---UCGCUUAUGCCAAGAAAUUU-UAAUUCUUCUUAUAGUCUCUUGGCAACGCGCCCUUAACGCUUU---UUAUGCAUUUUCCGACGU
...((((.(((---.(((...((((((((.(((.-(((......))).))).))))))))..)))))).))))((...---....))............ ( -27.60)
>DroEre_CAF1 128968 92 + 1
GUGGUUGUAGG---CCGCUUAUGCCAAGAAAUUU-AAAUUCUUCUUCUAGUCUCUUGGCAACGCGCCCUCAACGCUUU---UUAUGCGUUUUCCGACGU
...((((.(((---.(((...((((((((.(((.-.((......))..))).))))))))..))).))))))).....---....(((((....))))) ( -26.80)
>DroYak_CAF1 93830 92 + 1
GUAGUUGUAGG---CCGCUUAUGCCAAGAAAUUU-AAAUUCUUCUUUUAGUCUCUUGGCAACGCGCCCUUAACGCUUU---UUAUACGUUUUUCGACGA
...((((.(((---.(((...((((((((...((-(((.......)))))..))))))))..))).))))))).....---.....((((....)))). ( -25.50)
>DroPer_CAF1 101624 95 + 1
GUGUGUGUG--UGUGUGUGUAUCCCA-GACAUUAAUAUUUGUUCU-UUCGGCUCUUGGCAACGCGCCCUUAACGCAUUUUUUAAUGCGUUUUUUCUCGU
....(((((--(((((.((.....))-.)))).............-....((.....)).))))))....((((((((....))))))))......... ( -19.40)
>consensus
GUAGUUGUGGG___UCGCUUAUGCCAAGAAAUUU_UAAUUCUUCUUAUAGUCUCUUGGCAACGCGCCCUUAACGCUUU___UUAUGCGUUUUCCGACGU
.....(((.((....(((...((((((((.(((...............))).))))))))..(((.......)))..........)))....)).))). (-15.02 = -16.19 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,639,050 – 20,639,145
Length 95
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 83.74
Mean single sequence MFE -27.82
Consensus MFE -19.09
Energy contribution -20.07
Covariance contribution 0.97
Combinations/Pair 1.21
Mean z-score -3.97
Structure conservation index 0.69
SVM decision value 1.18
SVM RNA-class probability 0.926696
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20639050 95 - 20766785
ACGUCGGAAAACGCAUAA---AAAGCGUUAAGGGCGCGUUGCCAAGAGACUAUAAGAAGAAUUA-AAAUUUCUUGGCAUAAGCGACCACCCACAAAUAG
..((.((..(((((....---...)))))..((.(((..((((((((((.(.(((......)))-.).))))))))))...))).)).)).))...... ( -30.50)
>DroSec_CAF1 90000 92 - 1
ACGUCGGAAAACGCAUAA---AAAGCGUUAAGGGCGCGUUGCCAAGAGACUAUAAGAAGAAUUA-AAAUUUCUUGGCAUAAGCGA---CCCACAACUAC
.........(((((....---...)))))..((((((..((((((((((.(.(((......)))-.).))))))))))...))).---)))........ ( -30.40)
>DroSim_CAF1 90921 92 - 1
ACGUCGGAAAAUGCAUAA---AAAGCGUUAAGGGCGCGUUGCCAAGAGACUAUAAGAAGAAUUA-AAAUUUCUUGGCAUAAGCGA---CCCACAACUAC
.........(((((....---...)))))..((((((..((((((((((.(.(((......)))-.).))))))))))...))).---)))........ ( -28.60)
>DroEre_CAF1 128968 92 - 1
ACGUCGGAAAACGCAUAA---AAAGCGUUGAGGGCGCGUUGCCAAGAGACUAGAAGAAGAAUUU-AAAUUUCUUGGCAUAAGCGG---CCUACAACCAC
.....((..(((((....---...))))).(((.(((..((((((((((.(.(((......)))-.).))))))))))...))).---)))....)).. ( -32.70)
>DroYak_CAF1 93830 92 - 1
UCGUCGAAAAACGUAUAA---AAAGCGUUAAGGGCGCGUUGCCAAGAGACUAAAAGAAGAAUUU-AAAUUUCUUGGCAUAAGCGG---CCUACAACUAC
.........(((((....---...))))).(((.(((..((((((((((.(.(((......)))-.).))))))))))...))).---)))........ ( -28.00)
>DroPer_CAF1 101624 95 - 1
ACGAGAAAAAACGCAUUAAAAAAUGCGUUAAGGGCGCGUUGCCAAGAGCCGAA-AGAACAAAUAUUAAUGUC-UGGGAUACACACACA--CACACACAC
.(.(((...((((((((....))))))))...(((.(........).)))...-................))-).)............--......... ( -16.70)
>consensus
ACGUCGGAAAACGCAUAA___AAAGCGUUAAGGGCGCGUUGCCAAGAGACUAUAAGAAGAAUUA_AAAUUUCUUGGCAUAAGCGA___CCCACAACUAC
.........(((((..........)))))..((((((..((((((((((...(((......)))....))))))))))...)))....)))........ (-19.09 = -20.07 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:41 2006