Locus 2019

Sequence ID 2R_DroMel_CAF1
Location 7,596,842 – 7,596,932
Length 90
Max. P 0.800469
window3341

overview

Window 1

Location 7,596,842 – 7,596,932
Length 90
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 81.99
Mean single sequence MFE -22.32
Consensus MFE -15.37
Energy contribution -15.53
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.69
SVM decision value 0.62
SVM RNA-class probability 0.800469
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7596842 90 + 20766785
UUUCCCCUGCAUCUAUACAAUAUC-G-UU----UUU------UGUAAUUU-UUUC-AAAGGCGGCUGCGUUGUCAGUCAAUGUAGCCAAAUUAACAAACGAACA
......................((-(-((----(((------((......-...)-)))...((((((((((.....))))))))))........))))))... ( -20.20)
>DroSec_CAF1 42422 91 + 1
UUGCCCGUGCAUCUUUAGAAAAUC-GGUU----UUU------UGUAAUUU-UUUC-AAAGGCGGCUGCGUUGUCAGUCAAUGUAGCCAAAUUAACAAACGAACA
..(((..((.....(((.((((..-....----)))------).)))...-...)-)..)))((((((((((.....))))))))))................. ( -23.70)
>DroSim_CAF1 43267 91 + 1
UUGCCCGUGCAUCUAUACAAAAUC-GGUU----UUU------UGUAAUUU-UUUC-AAAGGCGGCUGCGUUGUCAGUCAAUGUAGCCAAAUUAACAAACGAACA
..(((..((......(((((((..-....----)))------))))....-...)-)..)))((((((((((.....))))))))))................. ( -25.82)
>DroEre_CAF1 41699 91 + 1
UCGUCUGUUCAUCUAUUCAAAUUC-G-UU----UUG------UGUAAUUUUUUUC-AAAGGCGGCUGCGUUGUCAGUCAAUGUAGCCAAAUUAACAAUCGAACA
......((((...(((.((((...-.-.)----)))------.))).........-......((((((((((.....))))))))))............)))). ( -22.00)
>DroYak_CAF1 43173 90 + 1
UUGUCUGUGCAUCUAUUCAAAUUC-C-UU----UUU------UGUAAUUU-UUUC-AAAGGCGGCUGCGUUGUCAGUCAAUGUAGCCAAAUUAACAACCGAGCA
..((((.((.....(((((((...-.-..----.))------)).)))..-...)-).))))((((((((((.....))))))))))................. ( -21.40)
>DroAna_CAF1 41825 100 + 1
UUU-UUGUGCAUCAAUUUGAGUUUCUGUUUGUUUUUUUUUUCUUGAAUCU-UCUCAAAAGGCGGCUGCUUUGUCAGUCAAUGUAGCCAAAUUAACAGGCAAG--
...-...(((.((.....))....(((((.((((........((((....-..)))).....((((((.(((.....))).)))))))))).))))))))..-- ( -20.80)
>consensus
UUGCCCGUGCAUCUAUACAAAAUC_G_UU____UUU______UGUAAUUU_UUUC_AAAGGCGGCUGCGUUGUCAGUCAAUGUAGCCAAAUUAACAAACGAACA
..............................................................((((((((((.....))))))))))................. (-15.37 = -15.53 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:01 2006