Locus 10233

Sequence ID 3R_DroMel_CAF1
Location 27,425,463 – 27,425,566
Length 103
Max. P 0.521712
window16305

overview

Window 5

Location 27,425,463 – 27,425,566
Length 103
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 83.55
Mean single sequence MFE -19.70
Consensus MFE -15.55
Energy contribution -14.97
Covariance contribution -0.58
Combinations/Pair 1.44
Mean z-score -1.45
Structure conservation index 0.79
SVM decision value -0.02
SVM RNA-class probability 0.521712
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27425463 103 + 27905053
AAAACAACCGGGCCGAAAUAGAAA---UCCAAUGACAUUGAACAUCCACAUCUAAGUUCAAUGUGAGAAUUCAAGGACGCACAACAGCUGGCUAAGAUAUACAUAG
.......(..(((((.........---(((..(.(((((((((............))))))))).)(....)..))).((......)))))))..).......... ( -19.10)
>DroSec_CAF1 456 99 + 1
AAAACAAUCGGGCCGAAAUAGAAA---UCCAAUGACAUUGAACAUGCACAUCUAAGUUCAAUGUGAGAAUUCAAGGACGCACAACAGCUGGCCAAGAUA----UAG
......(((.(((((.........---(((..(.(((((((((............))))))))).)(....)..))).((......)))))))..))).----... ( -21.90)
>DroSim_CAF1 3855 99 + 1
AAAACAAUCGGGCCGAAAUAGAAA---UCCAAUGACAUUGAGCAUGCACAUCUAAGUUCAAUGUGAGAAUUCAAGGACGCACAACAGCUGGCCAAGAUA----UAG
......(((.(((((.........---(((..(.(((((((((............))))))))).)(....)..))).((......)))))))..))).----... ( -21.90)
>DroEre_CAF1 653 99 + 1
AAAACCAAUGGGCUGAAAUAGAAA---UUCAAUGACAUUGAACAUGGACAUCUCAGUUCAAUGUGACAAUUCAAGGACGCACAACAGCUGGCCAAGAUA----UAG
..........((((..........---.....(.(((((((((.(((.....)))))))))))).)............((......)).))))......----... ( -18.70)
>DroYak_CAF1 3344 99 + 1
AAAACAACCUUGUCCAAAUAGAAA---UUCAAUGACAUUGAACAUGCACAUCUAAGUUCAAUGUGAGAAUUCAAGGACGCACAACAGCUGGCAAAGAUA----UAG
........(((((((.....(((.---(((..(.(((((((((............))))))))).)))))))..))))((.((.....)))).)))...----... ( -17.80)
>DroAna_CAF1 309 97 + 1
AGAAGCCUUGAAAAAAAGUAAAAUUUCUUCGAUGACAUUGAAUAUGCAU-UCAGGGUUCAAUGUGAGAAUUCAAGGACGCACAACAGCUGGUCUA--------UAC
(((.((((((((...(((........)))...(.(((((((((.((...-.))..))))))))).)...))))))).)((......))...))).--------... ( -18.80)
>consensus
AAAACAAUCGGGCCGAAAUAGAAA___UCCAAUGACAUUGAACAUGCACAUCUAAGUUCAAUGUGAGAAUUCAAGGACGCACAACAGCUGGCCAAGAUA____UAG
..........((((..................(.(((((((((............))))))))).)............((......)).))))............. (-15.55 = -14.97 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:52:10 2006