Locus 4069

Sequence ID 2R_DroMel_CAF1
Location 13,440,731 – 13,440,822
Length 91
Max. P 0.784259
window6554

overview

Window 4

Location 13,440,731 – 13,440,822
Length 91
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 74.11
Mean single sequence MFE -13.97
Consensus MFE -2.60
Energy contribution -2.20
Covariance contribution -0.40
Combinations/Pair 1.25
Mean z-score -1.72
Structure conservation index 0.19
SVM decision value 0.57
SVM RNA-class probability 0.784259
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13440731 91 - 20766785
-------UUUC-CCCUUGAAAUUUAAGAGCUCCUAAAUCU-CAAAA-AAUAUUUCCGAUCCUACAGAUCUAGAAACAAUGUUA-UACACAACAUUAUUGUAA
-------((((-...((((.(((((.(....).))))).)-)))..-.........((((.....))))..)))).((((((.-.....))))))....... (  -9.70)
>DroSec_CAF1 4704 91 - 1
-------UUUC-CCCUUGAAAUUUAAGAGCUUCUAAAUCU-CAAAA-AAUGUUUCUGAUCCUACAGAUCUAGAA-CACUAUUAUUACACCACAUUAUUGUAA
-------....-...((((.(((((........))))).)-)))..-..(((((..((((.....))))..)))-)).............(((....))).. ( -10.90)
>DroSim_CAF1 5313 91 - 1
-------UUUC-CCCUUGAAAUUUUAGAGCUCCUAAAUCU-CAAAA-AAUGUUUCCGAUCCUACAGAUCUAGAAACAAUUUUA-UACACCACAUUAUUGUAA
-------....-....(((...(((((.....)))))..)-))(((-(.((((((.((((.....))))..)))))).)))).-......(((....))).. ( -12.20)
>DroEre_CAF1 4683 98 - 1
GGAGCAAUUUUACUAUUGUAUGAAUAUGGCUCCCAAAUC-CCAAAA-CGU-UUUCAGAUCCUAAAGAUCCCAACACAAAGUCG-UGCACCAGAUUAUUGUGA
(((((.(((((((....))).))))...)))))......-......-...-.....((((.....))))....(((((((((.-.......)))).))))). ( -19.00)
>DroYak_CAF1 4676 101 - 1
GUAGCAAUUUUACUAUUGUAUGAAUAUGUCUCCUAAAUCUCCAAAAAGGUGUGUCAGAUCCUACAGAUCCAAACACAAUGUCA-UGCAUCACAUUAUUGUAA
...(((((........(((((((.................((.....))(((((..((((.....))))...)))))...)))-)))).......))))).. ( -18.06)
>consensus
_______UUUC_CCCUUGAAAUUUUAGAGCUCCUAAAUCU_CAAAA_AAUGUUUCAGAUCCUACAGAUCUAGAAACAAUGUUA_UACACCACAUUAUUGUAA
........................................................((((.....))))...............((((.........)))). ( -2.60 =  -2.20 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:00 2006