Locus 6967

Sequence ID 3L_DroMel_CAF1
Location 18,811,179 – 18,811,371
Length 192
Max. P 0.734721
window11297 window11298

overview

Window 7

Location 18,811,179 – 18,811,279
Length 100
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 95.33
Mean single sequence MFE -30.30
Consensus MFE -26.46
Energy contribution -27.13
Covariance contribution 0.67
Combinations/Pair 1.06
Mean z-score -2.18
Structure conservation index 0.87
SVM decision value 0.43
SVM RNA-class probability 0.734721
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18811179 100 - 23771897
AGAAAGCGGUAAUUACUUGUGAUUAGGCAGGUGAUUAGUGAUAAGUGGUUUGCAGCUAGAAAUUUGGGAACGUGGCGGCAUUUCGUCUUUUCCGGUUAAU
....(((.((((((((((((.(((((........))))).)))))))).)))).)))......(((((((...(((((....))))).)))))))..... ( -25.30)
>DroSec_CAF1 14966 100 - 1
AGACCGCGGUAAUUACUUGUGAUUAGGCAGGUGAUUAGUGAUUAGUGGUUUGCAGCUAGGAAUUUGGGAACGUGGCGGUAUUCCGUCUUUUCCGGUUAAU
.((((.((.(((((((((((......))))))))))).)).(((((.(....).))))).......((((...(((((....)))))..))))))))... ( -31.60)
>DroSim_CAF1 15237 100 - 1
AGACCGCGGUAAUUACUUGUGAUUAGGCAGGUGAUUAGUGAUUAGUGGUUUGCAGCUGGGAAUUUGGGAACGUGGCGGUAUUCCGUCUUUUCCGGUUAAU
((((((((.(((((((((((......))))))))))).).....)))))))..(((((((((...(....)..(((((....))))).)))))))))... ( -34.00)
>consensus
AGACCGCGGUAAUUACUUGUGAUUAGGCAGGUGAUUAGUGAUUAGUGGUUUGCAGCUAGGAAUUUGGGAACGUGGCGGUAUUCCGUCUUUUCCGGUUAAU
.((((.((.(((((((((((......))))))))))).)).(((((.(....).))))).......((((...(((((....)))))..))))))))... (-26.46 = -27.13 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 18,811,279 – 18,811,371
Length 92
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 81.91
Mean single sequence MFE -16.82
Consensus MFE -12.02
Energy contribution -13.65
Covariance contribution 1.63
Combinations/Pair 1.10
Mean z-score -1.51
Structure conservation index 0.71
SVM decision value -0.01
SVM RNA-class probability 0.528689
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18811279 92 - 23771897
UGAUCAAUUCUUCAGAUAUACCAAUAGUAUCUAUACC--AUAUAGAUCCCCAACCAUGGCGACCGAAACUACAAAAAUGGUAAGUUUGAUUUUG----
...........((((((.(((((......((((((..--.))))))((.(((....))).))...............))))).)))))).....---- ( -16.00)
>DroSec_CAF1 15066 90 - 1
UGAUCAAUUCUUCAGAUUUACCAAAAGUAUCUAUACC--AUAUAGAUC--CAACCAUGGCGACCGAAACUACAAAAAUGGUAAGUUUGAUUUUG----
...........((((((((((((.....(((((((..--.)))))))(--((....)))..................)))))))))))).....---- ( -18.00)
>DroSim_CAF1 15337 90 - 1
UGAUCAAUUCUUCAGAUUUACCAAAAGUAUCUAUACC--AUAUAGAUC--CGACCAUGGCGACCGAAACUACAAAAAUGGUAAGUUUGAUUUUG----
...........((((((((((((.....(((((((..--.))))))).--((.(....)))................)))))))))))).....---- ( -18.10)
>DroAna_CAF1 12829 90 - 1
ACGCCAAUUCUUCAGACA-GCCACGA----CUAUUCCACAUAUUGAUC---AGCCAUGGCAACUGAAACAACGAAAAUGGUAAGAUUGAUUUUCAUCG
..........(((((...-((((.(.----((..((........))..---)).).))))..))))).....((((((.(......).)))))).... ( -15.20)
>consensus
UGAUCAAUUCUUCAGAUAUACCAAAAGUAUCUAUACC__AUAUAGAUC__CAACCAUGGCGACCGAAACUACAAAAAUGGUAAGUUUGAUUUUG____
...........((((((((((((.....(((((((.....)))))))..........(....)..............))))))))))))......... (-12.02 = -13.65 +   1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:19 2006