Locus 3045

Sequence ID 2L_DroMel_CAF1
Location 8,688,899 – 8,689,075
Length 176
Max. P 0.524895
window4847 window4848

overview

Window 7

Location 8,688,899 – 8,689,008
Length 109
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 78.40
Mean single sequence MFE -30.95
Consensus MFE -19.36
Energy contribution -19.37
Covariance contribution 0.01
Combinations/Pair 1.32
Mean z-score -1.32
Structure conservation index 0.63
SVM decision value -0.03
SVM RNA-class probability 0.518433
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8688899 109 - 22407834
AUCGAUGAACUGGUGACGGUCAUGAAGGAUGUGGGUAUCGAUGACACUGAAUUCGCUUGCAUCAAGGCCCUAGUCUUCUUCGAUCCCAGUGAGUUAUUUAACUUAUUUA
((((((((.(((....)))))).(((((....((((...((((....((....))....))))...))))...))))).)))))...((((((((....)))))))).. ( -30.10)
>DroGri_CAF1 1945 99 - 1
AUUGAUGAGCUGGUGGUCGUCAUGAAGGAUGUCGGCAUUGAUGAGACCGAAUUUGCCUGCAUCAAGGCGCUGGUCUUCUUUGACCCCAGUGAGUUAA-----AU-----
.(((((..(((((.(((((....(((((...(((((.(((.......)))....((((......))))))))))))))..))))))))))..)))))-----..----- ( -34.90)
>DroEre_CAF1 1677 109 - 1
AUCGAUGAACUGGUGACGGUCAUGAAGGAUGUGGGCAUCGAUGAUACUGAAUUCGCCUGCAUCAAGGCCCUAGUCUUCUUCGAUCCCAGUGAGUUAUUCAACCUAUUGA
.((((((.((((....))))..((((.(((.((((.(((((.((.((((.....((((......))))..))))..)).)))))))))....))).))))...)))))) ( -31.40)
>DroWil_CAF1 1130 109 - 1
AUUGAUGAACUGGUUGUGGUGAUGAAAGAUGUGGGCAUUGACGAUACGGAAUUCGCCUGCAUUAAGGCGUUGGUGUUCUUUGAUCCAAGUGAGUAGAUCUCGAUUGUGA
(((((.((.(((.(..(...(((.(((((.....((((..((((........))((((......))))))..))))))))).)))...)..).))).)))))))..... ( -30.20)
>DroYak_CAF1 1275 109 - 1
AUCGAUGAACUGGUGACGGUUAUGAAGGAUGUGGGCAUCGAUGAUACGGAAUUCGCUUGCAUCAAGGCCCUAGUCUUCUUUGAUCCUAGUAGGUUAUUCGACAUAGUUA
.((((..(((((....)))))..(((((....((((...((((...((.....))....))))...))))...)))))..(((((......))))).))))........ ( -28.50)
>DroMoj_CAF1 1662 104 - 1
AUUGAUGAACUGGUGGUCGUUAUGAAGGACGUGGGCAUCGAUGAUACCGAAUUUGCCUGUAUUAAGGCAUUGGUCUUCUUUGAUCCCAGUAAGUGGUGUCGAUU-----
(((((((.(((....(((.(.....).))).((((.(((((.((.(((((...(((((......))))))))))..)).)))))))))...)))..))))))).----- ( -30.60)
>consensus
AUCGAUGAACUGGUGACGGUCAUGAAGGAUGUGGGCAUCGAUGAUACCGAAUUCGCCUGCAUCAAGGCCCUAGUCUUCUUUGAUCCCAGUGAGUUAUUCAACAUA_U_A
...(((..(((((....((((..((((((((..(((..................)))..))))(((((....))))))))))))))))))..))).............. (-19.36 = -19.37 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,688,968 – 8,689,075
Length 107
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 77.55
Mean single sequence MFE -34.20
Consensus MFE -21.96
Energy contribution -22.63
Covariance contribution 0.67
Combinations/Pair 1.43
Mean z-score -1.22
Structure conservation index 0.64
SVM decision value -0.02
SVM RNA-class probability 0.524895
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8688968 107 - 22407834
----AAUC--AUUCUUUUUCCAGAUCCCCUUGUGUCGCCGAAUUUGGACAUCUCCCGGAUCGGCGCCCGUAUCAUCGAUGAACUGGUGACGGUCAUGAAGGAUGUGGGUAUCG
----....--........((((.((((..(..((.((((((.(((((.......))))))))))).(((..((((((......))))))))).))..).)))).))))..... ( -33.60)
>DroEre_CAF1 1746 107 - 1
----AAUA--AUUUUCCUCGCAGAUCCUCUUGUGUCGCCCAAUUUGGACAUCUCGCGGAUCGGCGCCCGCAUCAUCGAUGAACUGGUGACGGUCAUGAAGGAUGUGGGCAUCG
----....--.........((.(((((.(..(((((..........)))))...).))))).))(((((((((.((.((((.(((....)))))))))..))))))))).... ( -41.50)
>DroWil_CAF1 1199 103 - 1
----U------CUUGUCCUCCAGAUCCACUUGUCUCGCCCAAUUUGGAUAUAUCGAGAAUAGGGGCGCGCAUCAUUGAUGAACUGGUUGUGGUGAUGAAAGAUGUGGGCAUUG
----(------(((((.(((...(((((.(((.......)))..))))).....))).))))))((.((((((.((.((..(((......))).)).)).)))))).)).... ( -25.60)
>DroYak_CAF1 1344 107 - 1
----AACA--AUUUUCGCUGCAGAUCCUCUUGUGUCACCAAAUUUGGACAUCUCGCGGAUCGGCGCCCGCAUUAUCGAUGAACUGGUGACGGUUAUGAAGGAUGUGGGCAUCG
----....--.........((.(((((.(..(((((..........)))))...).))))).))(((((((((.(((...(((((....))))).)))..))))))))).... ( -38.40)
>DroMoj_CAF1 1726 107 - 1
----CUCU--GUCUGUAUUAUAGAUCCCCAUGUCUCGCCCAAUUUGGAUAUAUCACGCAUUGGCGCGCGCAUCAUUGAUGAACUGGUGGUCGUUAUGAAGGACGUGGGCAUCG
----....--............(((.(((((((((((((((((.((((....)).)).))))).)))....((((.(((((.(....).))))))))).))))))))).))). ( -32.50)
>DroAna_CAF1 1735 113 - 1
AAAAAAGCAUAUUUGCCUUUCAGAUCCUCUUGUGUCACCCAAUUUGGAUAUCUCGAGGAUCGGAGCCCGCAUCAUUGAUGAGUUAGUGGUUGUGAUGAAGGAUGUGGGCAUCG
......(((....)))...((.(((((((..(((((..........)))))...))))))).))(((((((((..(.(..(.(....).)..).).....))))))))).... ( -33.60)
>consensus
____AACA__AUUUGCCUUCCAGAUCCUCUUGUGUCGCCCAAUUUGGACAUCUCGCGGAUCGGCGCCCGCAUCAUCGAUGAACUGGUGACGGUCAUGAAGGAUGUGGGCAUCG
...................((.(((((....(((((..........))))).....))))).))(((((((((....((((.(((....)))))))....))))))))).... (-21.96 = -22.63 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:00 2006