Locus 412

Sequence ID 2L_DroMel_CAF1
Location 1,234,618 – 1,234,729
Length 111
Max. P 0.751047
window665 window666

overview

Window 5

Location 1,234,618 – 1,234,729
Length 111
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.32
Mean single sequence MFE -32.68
Consensus MFE -22.77
Energy contribution -23.27
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.70
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1234618 111 + 22407834
CGUAAAAAAGGAC-------GAAGGACACUGGCCUGCAUUGUGCCGAACGCACACCAGCCCCCUUUUCGCUUUAAUCAAUUCCUGUUGGGGCACGCCCU--UAGUCCCUUAGUUUUUUGG
......(((((((-------...((((...(((.(((..(((((.....)))))(((((.........................))))).))).)))..--..))))....))))))).. ( -27.61)
>DroSec_CAF1 11940 108 + 1
CGUAAAAAAGGAC-------GAAGGACACUGGCCUGCAUUGUGCCGAACGCACAUCAGCCCCCUUUUCCCUUUAAUCAAUUCCUGUUUGGGCACGCCCUCUCAGUCC-----UUUUUUGC
.((((((((((((-------(((((.....((.(((...(((((.....))))).))).)).......)))))..........((...(((....)))...))))))-----)))))))) ( -34.80)
>DroSim_CAF1 7757 108 + 1
CGUAAAAAAGGAC-------GAAGGACACUGGCCUGCAUUGUGCCGAACGCACAUCAGCCCCCUUUUCGCUUUAAUCAAUUCCUGUUGGGGCACGCCCUCUCAGUCC-----UUUUUUGC
.((((((((((((-------(((((.....((.(((...(((((.....))))).))).))))))).................((..((((....))))..))))))-----)))))))) ( -35.80)
>DroYak_CAF1 7985 118 + 1
CGUAAAAAAGGACGAAGGACGAAGGACACUGGCCUGCAUUGUGCCGAACGCACAUCAGCCCCCUUUUCGCUUUAAUCAAUUCCUGUUGGGGCACGCCCU--CAGUCCCUUUUUUUUUUGG
((.((((((((((..(((.((((((.....((.(((...(((((.....))))).))).))))))...((((((((........)))))))).)).)))--..)).))))))))...)). ( -32.50)
>consensus
CGUAAAAAAGGAC_______GAAGGACACUGGCCUGCAUUGUGCCGAACGCACAUCAGCCCCCUUUUCGCUUUAAUCAAUUCCUGUUGGGGCACGCCCU__CAGUCC_____UUUUUUGC
.((((((((((((.......(((((.....((.(((...(((((.....))))).))).)))))))......................(((....))).....)))).....)))))))) (-22.77 = -23.27 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,234,618 – 1,234,729
Length 111
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.32
Mean single sequence MFE -38.74
Consensus MFE -28.40
Energy contribution -28.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.73
SVM decision value 0.48
SVM RNA-class probability 0.751047
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1234618 111 - 22407834
CCAAAAAACUAAGGGACUA--AGGGCGUGCCCCAACAGGAAUUGAUUAAAGCGAAAAGGGGGCUGGUGUGCGUUCGGCACAAUGCAGGCCAGUGUCCUUC-------GUCCUUUUUUACG
..........(((((((.(--(((((...((((........................))))((((((.((((((......)))))).)))))))))))).-------)))))))...... ( -40.46)
>DroSec_CAF1 11940 108 - 1
GCAAAAAA-----GGACUGAGAGGGCGUGCCCAAACAGGAAUUGAUUAAAGGGAAAAGGGGGCUGAUGUGCGUUCGGCACAAUGCAGGCCAGUGUCCUUC-------GUCCUUUUUUACG
(.((((((-----((((.....(((....))).................(((((.....((.(((.(((((.....)))))...))).))....))))).-------)))))))))).). ( -37.30)
>DroSim_CAF1 7757 108 - 1
GCAAAAAA-----GGACUGAGAGGGCGUGCCCCAACAGGAAUUGAUUAAAGCGAAAAGGGGGCUGAUGUGCGUUCGGCACAAUGCAGGCCAGUGUCCUUC-------GUCCUUUUUUACG
(.((((((-----((((.((.((((((.(((((........((.....))........)))))...(((((.....)))))...........))))))))-------)))))))))).). ( -35.79)
>DroYak_CAF1 7985 118 - 1
CCAAAAAAAAAAGGGACUG--AGGGCGUGCCCCAACAGGAAUUGAUUAAAGCGAAAAGGGGGCUGAUGUGCGUUCGGCACAAUGCAGGCCAGUGUCCUUCGUCCUUCGUCCUUUUUUACG
.......((((((((((.(--((((((....((....))................(((((.((((.(.((((((......)))))).).)))).)))))))))))).))))))))))... ( -41.40)
>consensus
CCAAAAAA_____GGACUG__AGGGCGUGCCCCAACAGGAAUUGAUUAAAGCGAAAAGGGGGCUGAUGUGCGUUCGGCACAAUGCAGGCCAGUGUCCUUC_______GUCCUUUUUUACG
.............((((.....(((....))).......................(((((.((((.(.((((((......)))))).).)))).)))))........))))......... (-28.40 = -28.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:31 2006