Locus 4674

Sequence ID	2L_DroMel_CAF1
Location	13,434,730 – 13,434,837
Length	107
Max. P	0.838629

overview

Window 7

Location	13,434,730 – 13,434,837
Length	107
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	80.31
Mean single sequence MFE	-26.12
Consensus MFE	-16.38
Energy contribution	-16.62
Covariance contribution	0.24
Combinations/Pair	1.30
Mean z-score	-1.87
Structure conservation index	0.63
SVM decision value	0.41
SVM RNA-class probability	0.725761
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13434730 107 + 22407834
UUAUUUAUUUUCCUGUUAAAUCCCCUCGACCAAUAUCCUGAAUCAAGGAUAUUAACGGGUUACGAGUCUAAGAGUACACAUUCCACUAACUGAUUAGUGUGGGAAAU----------
....................(((((((((((((((((((......))))))))....)))..)))).................((((((....)))))).))))...---------- ( -23.90)
>DroSec_CAF1 41637 117 + 1
UUAUUUAUUUUCCUGUUAAAUCCCCUCGACCAAUAUCCUGAAUCAAGGAUAUUAACGGGUUACGAGCCUAAGAGUACACAUUACACUAACUGAUUAGUGCGGGAAAUACCUAAGUAU
.((((((.(((((((.........(((....((((((((......))))))))...((((.....))))..))).........((((((....)))))))))))))....)))))). ( -27.80)
>DroSim_CAF1 42776 117 + 1
UUAUUUAUUUUCCUGUUAAAACCCCUCGACCAAUAUCCUGAAUCAAGGAUAUUAACGGGUUACGAGUCUAAGAGUACACAUUCCACUAACUGAUUAGUGCCGGAAAUACCUAAGUCU
........(((((...........(((((((((((((((......))))))))....)))..)))).................((((((....))))))..)))))........... ( -22.60)
>DroEre_CAF1 46205 113 + 1
UUAUUUAUUUUCCUGUUAAGGCCCCACGACUAAUAUCCCGAAUAAAGGAUAUUAGCGGGUUACGCUUCUAAGAGUAUCAAUUCUAGAAACUGAUUAGUUUGGGAUAU----AGUUCU
...........(((....)))......(((((.((((((((((...........(((.....)))(((((.((((....)))))))))........)))))))))))----)))).. ( -26.80)
>DroYak_CAF1 42483 111 + 1
UUAUUUAUUUUCCCGUUGAAGCCCCUCGGCCCAUAUCCUGAAUCAAGGAUAUUAAAGGGUUAAGAGAUAUAUGGUAGCAAG--UAGUAACUGAUUUGUAUGGGAGAU----AAGUUU
..((((((((.(((((........((..(((((((((((......)))))))....))))..))............(((((--(........)))))))))))))))----)))).. ( -29.50)
>consensus
UUAUUUAUUUUCCUGUUAAAGCCCCUCGACCAAUAUCCUGAAUCAAGGAUAUUAACGGGUUACGAGUCUAAGAGUACACAUUCCACUAACUGAUUAGUGUGGGAAAU____AAGUCU
........((((((((........(((((((((((((((......))))))))....)))..)))).((((.(((.............)))..)))).))))))))........... (-16.38 = -16.62 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	13,434,730 – 13,434,837
Length	107
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	80.31
Mean single sequence MFE	-26.62
Consensus MFE	-18.10
Energy contribution	-18.98
Covariance contribution	0.88
Combinations/Pair	1.17
Mean z-score	-1.92
Structure conservation index	0.68
SVM decision value	0.74
SVM RNA-class probability	0.838629
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13434730 107 - 22407834
----------AUUUCCCACACUAAUCAGUUAGUGGAAUGUGUACUCUUAGACUCGUAACCCGUUAAUAUCCUUGAUUCAGGAUAUUGGUCGAGGGGAUUUAACAGGAAAAUAAAUAA
----------.(((((..((((((....))))))...(((....(((....((((..(((....((((((((......))))))))))))))).)))....))))))))........ ( -25.70)
>DroSec_CAF1 41637 117 - 1
AUACUUAGGUAUUUCCCGCACUAAUCAGUUAGUGUAAUGUGUACUCUUAGGCUCGUAACCCGUUAAUAUCCUUGAUUCAGGAUAUUGGUCGAGGGGAUUUAACAGGAAAAUAAAUAA
...((.((((((.....(((((((....))))))).....)))).)).))........((.(((((..((((((((.(((....)))))))))))...))))).))........... ( -28.50)
>DroSim_CAF1 42776 117 - 1
AGACUUAGGUAUUUCCGGCACUAAUCAGUUAGUGGAAUGUGUACUCUUAGACUCGUAACCCGUUAAUAUCCUUGAUUCAGGAUAUUGGUCGAGGGGUUUUAACAGGAAAAUAAAUAA
...........(((((..((((((....))))))...(((..((((((.(((.((.....)).(((((((((......)))))))))))).))))))....))))))))........ ( -28.30)
>DroEre_CAF1 46205 113 - 1
AGAACU----AUAUCCCAAACUAAUCAGUUUCUAGAAUUGAUACUCUUAGAAGCGUAACCCGCUAAUAUCCUUUAUUCGGGAUAUUAGUCGUGGGGCCUUAACAGGAAAAUAAAUAA
......----...(((((.........(((((((((........)).)))))))......((((((((((((......)))))))))).)))))))(((....)))........... ( -28.10)
>DroYak_CAF1 42483 111 - 1
AAACUU----AUCUCCCAUACAAAUCAGUUACUA--CUUGCUACCAUAUAUCUCUUAACCCUUUAAUAUCCUUGAUUCAGGAUAUGGGCCGAGGGGCUUCAACGGGAAAAUAAAUAA
......----...((((.........(((.....--...)))........((((((..(((....(((((((......))))))))))..)))))).......)))).......... ( -22.50)
>consensus
AGACUU____AUUUCCCACACUAAUCAGUUAGUGGAAUGUGUACUCUUAGACUCGUAACCCGUUAAUAUCCUUGAUUCAGGAUAUUGGUCGAGGGGAUUUAACAGGAAAAUAAAUAA
...........(((((..((((((....))))))........................(((.((((((((((......))))))))))....))).........)))))........ (-18.10 = -18.98 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:16 2006