Locus 3073

Sequence ID 2R_DroMel_CAF1
Location 10,543,550 – 10,543,670
Length 120
Max. P 0.780993
window5073

overview

Window 3

Location 10,543,550 – 10,543,670
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.49
Mean single sequence MFE -16.12
Consensus MFE -11.36
Energy contribution -11.56
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.70
SVM decision value 0.56
SVM RNA-class probability 0.780993
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10543550 120 - 20766785
ACCAAAAAUAUACAAAAACAACCAAAAAAAAAAAAAAAUACAGAACUACUCAGCCAGUCCAAUCGUCACCCAUAAGCCAGAAAUUCAAGUUAUCUGGCGGCAUUUUGAAAAAACUGCUCG
............(((((.........................((.....)).(((.(......)...........(((((((((....))).))))))))).)))))............. ( -15.20)
>DroSec_CAF1 36678 112 - 1
ACCAAAAAUAUACAAAAAA-AAAC------AAAAAAAAUACAGAACUACUAAGCCAGUCGAAUCGUCACCCAAGAGCCAGAAAUUCAAGUUAUCUGGCGGCAUUUUGAA-AAACUGCUCG
...................-...(------((((.......((.....))..(((.(.((...)).)........(((((((((....))).))))))))).)))))..-.......... ( -15.40)
>DroSim_CAF1 33229 119 - 1
ACCAAAAAUAUACAACAAAAAAACGAAAAAAAAAACAAUACAGAACUACUAAGCCAGUCGAAUCGUCACCCAAGAGCCAGAAAUUCAAGUUAUCUGGCGGCAUUUUGAA-AAACUGCUCC
...............(((((.....................((.....))..(((.(.((...)).)........(((((((((....))).))))))))).)))))..-.......... ( -15.40)
>DroEre_CAF1 38080 101 - 1
CC-AAAAAAAUAUAACAAU----------------AAAUACAGAACUACUCAGCCAGUC-AACCGUCACCCAAGAGCCAGAAAUUCAAGUUGUCUGGCGGAGUUUUGAA-AAACUGCUGG
..-................----------------.....(((((((.....(((((.(-(((..((......))....(.....)..)))).)))))..)))))))..-.......... ( -19.20)
>DroYak_CAF1 37953 91 - 1
AC-AAAAAAAUA--------------------------UACAAAACUACUCAAGCUGUC-AAUCGUCACCCAAGAGCCAGAAAUACAAGUUAUCUGGCGGCUUUUUGAA-AAACUGCUCA
..-.........--------------------------...........(((((..(((-.....((......))(((((((((....))).)))))))))..))))).-.......... ( -15.40)
>consensus
ACCAAAAAUAUACAAAAAA_A_________AAAAAAAAUACAGAACUACUCAGCCAGUC_AAUCGUCACCCAAGAGCCAGAAAUUCAAGUUAUCUGGCGGCAUUUUGAA_AAACUGCUCG
......................................................((((.......(((.......(((((((((....))).)))))).......)))....)))).... (-11.36 = -11.56 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:50 2006