Locus 2613

Sequence ID 3L_DroMel_CAF1
Location 7,229,103 – 7,229,201
Length 98
Max. P 0.986879
window4093 window4094

overview

Window 3

Location 7,229,103 – 7,229,201
Length 98
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 83.54
Mean single sequence MFE -28.42
Consensus MFE -25.87
Energy contribution -26.53
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.22
Structure conservation index 0.91
SVM decision value 0.53
SVM RNA-class probability 0.772589
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7229103 98 + 23771897
GCAUAUUUUU--------------UUUGGGGGCGCGGUUUAGAAAGUUGUGCUCCCCCUCCAUGCCAUGGAUGUGGCCAAAAAAAAAAAAAAAAAACUGGGCCAUGGCAUUC
..........--------------...((((((((..((.....))..)))))))).....(((((((((......(((..................))).))))))))).. ( -28.77)
>DroSec_CAF1 10802 105 + 1
GCAUAUUUUUCUUUUUUUUUUUUAUUUGGGGGCGCGGUUUAGAAAGUUUGGCUCCCCCUCCAUGCCAUGGAUGUGGCCGAAAA-------AAAAAACUGGGCCAUGGCAUUC
((.(((..(((.(((((((((((....(((((.((.(...........).)).))))).....(((((....))))).)))))-------))))))..)))..))))).... ( -27.60)
>DroSim_CAF1 10721 103 + 1
GCAUAUUUUUCUUGUU-UUUUUCAUCUGGGGGCGCGGUUUAGAAAGUUUUGCUCCCCCUCCAUGCCAUGGAUGUGGCCGAAAA--------AAAAACUGGGCCAUGGCAUUC
((.(((..(((...((-((((((....(((((.((((...........)))).))))).....(((((....))))).)))))--------)))....)))..))))).... ( -28.90)
>consensus
GCAUAUUUUUCUU_UU_UUUUU_AUUUGGGGGCGCGGUUUAGAAAGUUUUGCUCCCCCUCCAUGCCAUGGAUGUGGCCGAAAA_______AAAAAACUGGGCCAUGGCAUUC
...........................(((((.((((...........)))).)))))...(((((((((..((.....................))....))))))))).. (-25.87 = -26.53 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 7,229,103 – 7,229,201
Length 98
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 83.54
Mean single sequence MFE -27.16
Consensus MFE -25.82
Energy contribution -25.82
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.98
Structure conservation index 0.95
SVM decision value 2.06
SVM RNA-class probability 0.986879
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7229103 98 - 23771897
GAAUGCCAUGGCCCAGUUUUUUUUUUUUUUUUUUGGCCACAUCCAUGGCAUGGAGGGGGAGCACAACUUUCUAAACCGCGCCCCCAAA--------------AAAAAUAUGC
..(((((((((.((((................))))......)))))))))...(((((.((...............)).)))))...--------------.......... ( -27.55)
>DroSec_CAF1 10802 105 - 1
GAAUGCCAUGGCCCAGUUUUUU-------UUUUCGGCCACAUCCAUGGCAUGGAGGGGGAGCCAAACUUUCUAAACCGCGCCCCCAAAUAAAAAAAAAAAAGAAAAAUAUGC
..(((((((((((.((......-------..)).)))))......))))))...(((((.((...............)).)))))........................... ( -26.76)
>DroSim_CAF1 10721 103 - 1
GAAUGCCAUGGCCCAGUUUUU--------UUUUCGGCCACAUCCAUGGCAUGGAGGGGGAGCAAAACUUUCUAAACCGCGCCCCCAGAUGAAAAA-AACAAGAAAAAUAUGC
....((....))...((((((--------(((((.((((......)))).....(((((.((...............)).))))).)).))))))-)))............. ( -27.16)
>consensus
GAAUGCCAUGGCCCAGUUUUUU_______UUUUCGGCCACAUCCAUGGCAUGGAGGGGGAGCAAAACUUUCUAAACCGCGCCCCCAAAU_AAAAA_AA_AAGAAAAAUAUGC
..(((((((((((.((...............)).)))))......))))))...(((((.((...............)).)))))........................... (-25.82 = -25.82 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:32 2006