Locus 4019

Sequence ID 2R_DroMel_CAF1
Location 13,274,041 – 13,274,146
Length 105
Max. P 0.519898
window6483

overview

Window 3

Location 13,274,041 – 13,274,146
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.94
Mean single sequence MFE -24.52
Consensus MFE -13.22
Energy contribution -12.97
Covariance contribution -0.25
Combinations/Pair 1.13
Mean z-score -2.26
Structure conservation index 0.54
SVM decision value -0.03
SVM RNA-class probability 0.519898
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13274041 105 - 20766785
GCU-----CCACCAACAGCCUGUCACUCAUAUUUAAUAUUUUC---GAAAUUCACAAAAGUAUCGGAUUACAGGAAAGCAAGG--CAGUCUGAAAUCACAAAAUGUGAUUUCGG-U----
...-----..(((....((((.((.((...(((..(((((((.---(.......).)))))))..)))...)))).....)))--).....((((((((.....))))))))))-)---- ( -24.60)
>DroPse_CAF1 1268 110 - 1
GCAGACAGUCUCCAUGAGCCUGUCACUCAUAUUUAAUAUUUUU---GAAAUUCACAAAAGUAUCGGAUUACAGGAAAGCAAGG--CAAACUGAAAUCACAAAAUGUGAUUUGAA-U----
((.(((((.(((...))).))))).((...(((..((((((((---(.......)))))))))..)))...))....))....--.....(.(((((((.....))))))).).-.---- ( -26.60)
>DroGri_CAF1 1506 99 - 1
-------------GUGAGUCUGUCACUCAUAUUUUGUAUUUUU---GAAAUUCACAAAAGUAUCUGAUUACAGGAAAGCCAGACACAAACUGAAAUCACAAAAUGUGAUUUUUG-U----
-------------.((.(((((.(..((..(((..((((((((---(.......)))))))))..))).....))..).))))).)).((.((((((((.....)))))))).)-)---- ( -22.00)
>DroWil_CAF1 5184 113 - 1
GCG-----UCUUCGGGAGCCUGUCACUCAUAUUUAAUAUUUUUUUGAAAAUUCACAAAAGUAUCCGAUUACAGGAAAGCAAGA--CAAACUGAAAUCACAAAGAGUGGUUUCGAAUGAGU
((.-----.(....)..)).....((((((......(((((((.(((....))).)))))))(((.......)))........--.....(((((((((.....))))))))).)))))) ( -25.50)
>DroAna_CAF1 1220 102 - 1
GCU--------CCAUGGACCUGUCACUCAUAUUUAAUAUUUUU---GAAAUUCACAAAAGUAUCGGAUUACAGGAAAGCGAGG--CAGUCUGAAAUCACAAAAUGUGAUUUGAA-U----
((.--------.(.....(((((.......(((..((((((((---(.......)))))))))..))).))))).....)..)--)....(.(((((((.....))))))).).-.---- ( -21.80)
>DroPer_CAF1 1317 110 - 1
GCAGACAGUCUCCAUGAGCCUGUCACUCAUAUUUAAUAUUUUU---GAAAUUCACAAAAGUAUCGGAUUACAGGAAAGCAAGG--CAAACUGAAAUCACAAAAUGUGAUUUGAA-U----
((.(((((.(((...))).))))).((...(((..((((((((---(.......)))))))))..)))...))....))....--.....(.(((((((.....))))))).).-.---- ( -26.60)
>consensus
GCA_____UCUCCAUGAGCCUGUCACUCAUAUUUAAUAUUUUU___GAAAUUCACAAAAGUAUCGGAUUACAGGAAAGCAAGG__CAAACUGAAAUCACAAAAUGUGAUUUGAA_U____
..................(((((.......(((..((((((((............))))))))..))).)))))..................(((((((.....)))))))......... (-13.22 = -12.97 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:47 2006