Locus 7779

Sequence ID 3R_DroMel_CAF1
Location 20,835,037 – 20,835,140
Length 103
Max. P 0.979444
window12545 window12546

overview

Window 5

Location 20,835,037 – 20,835,140
Length 103
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 81.16
Mean single sequence MFE -33.08
Consensus MFE -20.14
Energy contribution -20.45
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -2.81
Structure conservation index 0.61
SVM decision value 1.84
SVM RNA-class probability 0.979444
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20835037 103 + 27905053
UCCAAGUCGUACUCCACCCAUUCCUAUUUCUCUUUUUAUUCCUGGAUGGAGAUGG--GGAUGGAGAUGGCGGUGGAGGUGGAGGUGGAGAUGGAGGUGGGUGUGG
((((..((((.((((((((((..((((..((.((((((((((((........)))--))))))))).))..))))..)))..)))))))))))...))))..... ( -39.30)
>DroSec_CAF1 50847 79 + 1
UCCAAGUAGUACUCCACCCAUUCCUAUUACUCUUUUCAUUCCUGGAUGGAGCUGG--GGAUGGA------------------------GAUGGAGGUGGGUGUGG
...........(..(((((((..(((((......((((((((..(......)..)--)))))))------------------------)))))..)))))))..) ( -29.80)
>DroSim_CAF1 50298 85 + 1
UCCAAGUCGUACUCCACCCAUUCCUAUUACUCUUUUCAUUCCUGGAUGGAGCUGG--GGAUGGAGAU------------------GGAGAUGGAGGUGGGUGUGG
...........(..(((((((..(((((.((.((((((((((..(......)..)--))))))))).------------------)).)))))..)))))))..) ( -36.40)
>DroYak_CAF1 44582 84 + 1
UCC-AGUCGUACUCCACCCAUUCCUAUUACUCUUCUCAUUCCUGGAUGGAGAUGGUUGGUUGGAGGU--------------------AGUUGGAGGUGGGUGUGG
...-.......(..((((((((((.(((((.(((((((((((.....))).))))......))))))--------------------))).))).)))))))..) ( -26.80)
>consensus
UCCAAGUCGUACUCCACCCAUUCCUAUUACUCUUUUCAUUCCUGGAUGGAGAUGG__GGAUGGAGAU____________________AGAUGGAGGUGGGUGUGG
...........(..(((((((..(((((.((((..(((((((.....)))).)))......)))).......................)))))..)))))))..) (-20.14 = -20.45 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,835,037 – 20,835,140
Length 103
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 81.16
Mean single sequence MFE -20.80
Consensus MFE -15.27
Energy contribution -15.53
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.73
SVM decision value 0.92
SVM RNA-class probability 0.881549
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20835037 103 - 27905053
CCACACCCACCUCCAUCUCCACCUCCACCUCCACCGCCAUCUCCAUCC--CCAUCUCCAUCCAGGAAUAAAAAGAGAAAUAGGAAUGGGUGGAGUACGACUUGGA
...........((((..((...((((((((...((....((((.....--.....(((.....))).......))))....))...))))))))...))..)))) ( -25.83)
>DroSec_CAF1 50847 79 - 1
CCACACCCACCUCCAUC------------------------UCCAUCC--CCAGCUCCAUCCAGGAAUGAAAAGAGUAAUAGGAAUGGGUGGAGUACUACUUGGA
((.(((((((((....(------------------------((.....--.((..(((.....))).))....)))....)))..))))))(((.....))))). ( -19.00)
>DroSim_CAF1 50298 85 - 1
CCACACCCACCUCCAUCUCC------------------AUCUCCAUCC--CCAGCUCCAUCCAGGAAUGAAAAGAGUAAUAGGAAUGGGUGGAGUACGACUUGGA
...........((((..((.------------------..((((((((--((.((((....((....))....))))....))...))))))))...))..)))) ( -21.60)
>DroYak_CAF1 44582 84 - 1
CCACACCCACCUCCAACU--------------------ACCUCCAACCAACCAUCUCCAUCCAGGAAUGAGAAGAGUAAUAGGAAUGGGUGGAGUACGACU-GGA
((.(((((((((...(((--------------------..(((...((...............))...)))...)))...)))..)))))).((.....))-)). ( -16.76)
>consensus
CCACACCCACCUCCAUCU____________________AUCUCCAUCC__CCAGCUCCAUCCAGGAAUGAAAAGAGUAAUAGGAAUGGGUGGAGUACGACUUGGA
((.((((((..(((.........................................(((.....)))........(....).))).))))))(((.....))))). (-15.27 = -15.53 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:29 2006