Locus 6459

Sequence ID 2R_DroMel_CAF1
Location 20,198,080 – 20,198,176
Length 96
Max. P 0.997323
window10300

overview

Window 0

Location 20,198,080 – 20,198,176
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 66.12
Mean single sequence MFE -43.40
Consensus MFE -19.06
Energy contribution -18.65
Covariance contribution -0.41
Combinations/Pair 1.41
Mean z-score -2.91
Structure conservation index 0.44
SVM decision value 2.84
SVM RNA-class probability 0.997323
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20198080 96 + 20766785
UGCCAGUGCUCAGUGUCCA-------GUGUCCAGUGUCCAGUGGGCGAUGGA--------------CGAUGGCCAAUGGCUUUUGGCCAUUUU---CGGGGCAGGGACGCUGCACAAUUA
.....((((..(((((((.-------.(((((...(((((........))))--------------)(((((((((......)))))))))..---..))))).)))))))))))..... ( -45.40)
>DroPse_CAF1 27499 106 + 1
CGCCAGCGAACAGUGGACGACGUACAACGGCCAAUGGUCAGUGGUCAGUGGU--------------AAGUGGUCAGUGGUCCCUGGGCAGUGCGAGCCGGGCUUGGGCGCUGCACAAUUA
.((.((((..(((.((((.((...((...((((.((..(...)..)).))))--------------...))....)).)))))))..).((.(((((...))))).)))))))....... ( -40.30)
>DroSec_CAF1 21778 89 + 1
UGCCCCUGCUCAGUGUCCA--------------GUGUCCAGUGGGCGAUGGA--------------CGAUGGCCAAUGGCUUUUGGCCAUUUU---CGGGGCAGGGGCGCUGCACAAUUA
.((((((((((...(((((--------------.(((((...))))).))))--------------)(((((((((......)))))))))..---..))))))))))............ ( -49.40)
>DroSim_CAF1 22106 96 + 1
UGCCAGUGCUCAGUGUCCA-------GUGUCCAGUGUCCAGUGGGCGAUGGA--------------CGAUGGCCAAUGGCUUUUGGCCAUUUU---CAGGGCAGGGGCGCUGCACAAUUA
(((.(((((((..(((((.-------..(((((.(((((...))))).))))--------------)(((((((((......)))))))))..---..))))).))))))))))...... ( -48.00)
>DroEre_CAF1 21755 80 + 1
UGCC--------------A-------GUGUCCAGUGUCCAGUGGUCGAUGGC--------------CAAUGGCCAAUGGCUUUUGGCCAUUUU---CGGG-CCG-GGCGCUGCACAAUUA
....--------------.-------.(((.((((((((...((((((((((--------------(((.((((...)))).)))))))))..---..))-)))-))))))).))).... ( -38.00)
>DroPer_CAF1 24315 120 + 1
CGCCAGCGAACAGUGGACGACGUCCAACGGCUAAUGGUCAGUGGUCAGUGGUAAGUGGUAAGUGGUAAGUGGUCAGUGGUCCCUGGGCAGUGCGAGCCGGGCUUGGGCGCUGCACAAUUA
.((.((((..((((((((...))))).(((((..((.((((.(..((.(((..(.(...........).)..))).))..).)))).)).....)))))...)))..))))))....... ( -39.30)
>consensus
UGCCAGUGCUCAGUGUCCA_______GUGUCCAGUGUCCAGUGGGCGAUGGA______________CAAUGGCCAAUGGCUUUUGGCCAUUUU___CGGGGCAGGGGCGCUGCACAAUUA
((((.........................((((.(((((...))))).))))...............(((((((((......)))))))))..............))))........... (-19.06 = -18.65 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:29 2006