Locus 6825

Sequence ID 3R_DroMel_CAF1
Location 18,041,618 – 18,041,738
Length 120
Max. P 0.667033
window11080

overview

Window 0

Location 18,041,618 – 18,041,738
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.61
Mean single sequence MFE -39.07
Consensus MFE -17.19
Energy contribution -17.53
Covariance contribution 0.34
Combinations/Pair 1.40
Mean z-score -2.20
Structure conservation index 0.44
SVM decision value 0.28
SVM RNA-class probability 0.667033
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18041618 120 - 27905053
GGAGACCAAACUUCUCCGGAUAUAAGUUGUGCAGACAUGGAAGCACAGGUGGACUUGCUCCAACCUGCAGGAAAUGAAUGACCAUUAGCAUGAGCGAGUAGCUCGAUAUGGUCAUGUUCU
(((((.......)))))((((((...((.(((((...((((.(((.((.....)))))))))..))))).)).......((((((.....(((((.....)))))..)))))))))))). ( -40.70)
>DroVir_CAF1 95958 120 - 1
AAAUGCAAAAUUUCUCCGGAUACAUUUUGUGCAAACACGGCAACACCGGCGGAUUGACGCCGGCCUGUAGAAAAUGUAUAACCAUCAGCAUUAGGGAAUAGCUGGAUAUGGUCAUAUUCU
...................(((((((((.((((.....(....).((((((......))))))..)))).))))))))).((((((((((((....))).))))...)))))........ ( -34.70)
>DroGri_CAF1 93313 120 - 1
AUAUGCAAAACUUCUCCGGGUACAUUUUGUGCAGGCAGGGCAACACCGGUGGAUUAACGCCAGCUUGCAGAAAGUGUAUAACCAUCAGCAUCAAGGAGUAGCUGGAUAUGGUCAUGUUCU
....(((..(((..((((((((((((((.(((((((.((......))((((......)))).))))))).)))))))))..((...........)).....)))))...)))..)))... ( -40.50)
>DroWil_CAF1 90902 120 - 1
AUAGACCAAAUUUCUCCGGAUACAACUUGUGCAGGCAGGGCAGAACCGGUGGACUAACACCGGCCUGGAGAUAGUGUAUAACCAUCAACAUAAGGGAAUAACUAGAAAUGGUCAUAUUUU
...(((((....(((((((......(((((....)))))......((((((......)))))).)))))))((((.(((..((..........))..)))))))....)))))....... ( -37.60)
>DroMoj_CAF1 106147 120 - 1
GAAUGCUGAACUUCUCCGGAUAUAGCUUGUGCAGGCAGGGCAGCACCGGCGGAUUGACGCCGGACUGCAGAAAGUGUAUGACCAUCAGCAUGAGCGAGUAGCUGGAGAUGGUCAUGUUCU
(((((.(((...(((((((.(((.(((..(((.......((((..((((((......)))))).)))).((..((.....))..)).)))..)))..))).)))))))...)))))))). ( -49.10)
>DroAna_CAF1 81235 120 - 1
GAAGGCCGAACUUGUCUGGGUAUAGCUUGUGUAGGCAUGGUAUCACGGGAGGAUUGACGCCUGCCUGGAGGAAAUGGAUCACCAUCAACGACAGGGAGUAGGAGGAUAUGGUCAUGUUCU
...((((...(.((((((..((.....))..)))))).)(((((.((((.(......).))))((((..(...((((....))))...)..)))).........)))))))))....... ( -31.80)
>consensus
AAAGGCCAAACUUCUCCGGAUACAACUUGUGCAGGCAGGGCAGCACCGGUGGAUUGACGCCGGCCUGCAGAAAAUGUAUAACCAUCAGCAUCAGGGAGUAGCUGGAUAUGGUCAUGUUCU
........(((....(((((((((..((.(((((...((......))((((......))))...))))).))..)))))..)).(((((...........)))))....))....))).. (-17.19 = -17.53 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:54 2006