Locus 4445

Sequence ID 2L_DroMel_CAF1
Location 12,769,055 – 12,769,166
Length 111
Max. P 0.940475
window6990 window6991

overview

Window 0

Location 12,769,055 – 12,769,166
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.77
Mean single sequence MFE -25.52
Consensus MFE -18.07
Energy contribution -18.90
Covariance contribution 0.83
Combinations/Pair 1.08
Mean z-score -2.77
Structure conservation index 0.71
SVM decision value 1.31
SVM RNA-class probability 0.940475
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12769055 111 + 22407834
AUGUUAAUGGAUUCGCACUUGCAAUGAACCACAAACAUAUGCAAAUGUCUCGAGCACCUGCUAACAACAUUAACUAGCAGGCAGUCCACACAUACAUACGU----AUGUAUAUCC-----
.......((((((.(((.((((((((.........))).))))).)))........(((((((...........))))))).)))))).((((((....))----))))......----- ( -26.10)
>DroPse_CAF1 60903 113 + 1
AUGUUAAUGGAUUCGCACUUGCAAUGAACCACAAACAUAUGCAAAUGUCUCGAGCACCUGCUAACAACAUUAACUAGCAGAGUCUCUC--CCUCCUCACCCCCCUCUCCACCUCC-----
.......((((...(((.((((((((.........))).))))).)))...(((.((((((((...........)))))).)))))..--................)))).....----- ( -21.20)
>DroSec_CAF1 46061 115 + 1
AUGUUAAUGGAUUCGCACUUGCAAUGAACCACAAACAUAUGCAAAUGUCUCGAGCACCUGCUAACAACAUUAACUAGCAGGGAGUACACACAUGCAUACGUGUGUAUGUAUAUCC-----
.((((..(((.(((((....))...))))))..))))(((((..............(((((((...........)))))))..((((((((........)))))))))))))...----- ( -29.90)
>DroEre_CAF1 48014 108 + 1
AUGUUAAUGGAUUCGCACUUGCAAUGAACCACAAACAUAUGCAAAUGUCUCGAGCACCUGCUAACAACAUUAACUAGCAGGGAGUCCACACAUACGUGUAUCCUGGCA------------
.(((((..(((((((((.((((((((.........))).))))).)))........(((((((...........)))))))))))))((((....))))....)))))------------ ( -29.80)
>DroYak_CAF1 47224 120 + 1
AUGUUAAUGGAUUCGCACUUGCAAUGAACCACAAACAUAUGCAAAUGUCUCGAGCACCUGCUAACAACAUUAACUAGCAGGGAGUCUACGCAUACAUACAUACAUGCAUAUAGCCAUCCC
..((((.((((((((((.((((((((.........))).))))).)))........(((((((...........)))))))))))))).((((..........))))...))))...... ( -27.20)
>DroAna_CAF1 46054 97 + 1
AUGUUAAUGGAUUCGCACUUGCAAUGAACCACAAACAUAUGCAAAUGUCUCGAGCACCUGCUAACAACAUUAACUAGCAAGGACUUCCCCA--------------GCA----CCC-----
..(((((((((...(((.((((((((.........))).))))).))).)).(((....))).....)))))))..((..((.....))..--------------)).----...----- ( -18.90)
>consensus
AUGUUAAUGGAUUCGCACUUGCAAUGAACCACAAACAUAUGCAAAUGUCUCGAGCACCUGCUAACAACAUUAACUAGCAGGGAGUCCACACAUACAUACAU_C_UGCAUAUAUCC_____
........(((((((((.((((((((.........))).))))).)))........(((((((...........)))))))))))))................................. (-18.07 = -18.90 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 12,769,055 – 12,769,166
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.77
Mean single sequence MFE -32.17
Consensus MFE -20.79
Energy contribution -20.52
Covariance contribution -0.28
Combinations/Pair 1.08
Mean z-score -1.75
Structure conservation index 0.65
SVM decision value 0.37
SVM RNA-class probability 0.707497
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12769055 111 - 22407834
-----GGAUAUACAU----ACGUAUGUAUGUGUGGACUGCCUGCUAGUUAAUGUUGUUAGCAGGUGCUCGAGACAUUUGCAUAUGUUUGUGGUUCAUUGCAAGUGCGAAUCCAUUAACAU
-----((((.((((.----((((((((((((.(.((..(((((((((.........)))))))))..)).).))))..)))))))).)))).....((((....))))))))........ ( -38.60)
>DroPse_CAF1 60903 113 - 1
-----GGAGGUGGAGAGGGGGGUGAGGAGG--GAGAGACUCUGCUAGUUAAUGUUGUUAGCAGGUGCUCGAGACAUUUGCAUAUGUUUGUGGUUCAUUGCAAGUGCGAAUCCAUUAACAU
-----(..((((((................--..(((((.(((((((.........))))))))).)))..(.((((((((.(((.........))))))))))))...))))))..).. ( -29.10)
>DroSec_CAF1 46061 115 - 1
-----GGAUAUACAUACACACGUAUGCAUGUGUGUACUCCCUGCUAGUUAAUGUUGUUAGCAGGUGCUCGAGACAUUUGCAUAUGUUUGUGGUUCAUUGCAAGUGCGAAUCCAUUAACAU
-----((((.....((((.(((((((((...((((.(((((((((((.........)))))))).....))))))).))))))))).)))).....((((....))))))))........ ( -37.50)
>DroEre_CAF1 48014 108 - 1
------------UGCCAGGAUACACGUAUGUGUGGACUCCCUGCUAGUUAAUGUUGUUAGCAGGUGCUCGAGACAUUUGCAUAUGUUUGUGGUUCAUUGCAAGUGCGAAUCCAUUAACAU
------------.....(((((((..((((((..(((((((((((((.........)))))))).....)))...))..))))))..)))......((((....))))))))........ ( -28.70)
>DroYak_CAF1 47224 120 - 1
GGGAUGGCUAUAUGCAUGUAUGUAUGUAUGCGUAGACUCCCUGCUAGUUAAUGUUGUUAGCAGGUGCUCGAGACAUUUGCAUAUGUUUGUGGUUCAUUGCAAGUGCGAAUCCAUUAACAU
.(((((((((((.((((((..(.((((...((.((....((((((((.........))))))))..))))..)))).)..)))))).)))))))..((((....))))))))........ ( -33.80)
>DroAna_CAF1 46054 97 - 1
-----GGG----UGC--------------UGGGGAAGUCCUUGCUAGUUAAUGUUGUUAGCAGGUGCUCGAGACAUUUGCAUAUGUUUGUGGUUCAUUGCAAGUGCGAAUCCAUUAACAU
-----(((----(((--------------(.(((....(((.(((((.........))))))))..))).)).)))))....(((((.((((....((((....))))..)))).))))) ( -25.30)
>consensus
_____GGAUAUAUACA_G_ACGUAUGUAUGUGUGGACUCCCUGCUAGUUAAUGUUGUUAGCAGGUGCUCGAGACAUUUGCAUAUGUUUGUGGUUCAUUGCAAGUGCGAAUCCAUUAACAU
.......................................((((((((.........))))))))(((...........))).(((((.((((....((((....))))..)))).))))) (-20.79 = -20.52 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:54 2006