Locus 6330

Sequence ID 2R_DroMel_CAF1
Location 19,845,273 – 19,845,375
Length 102
Max. P 0.988948
window10112 window10113

overview

Window 2

Location 19,845,273 – 19,845,375
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 83.50
Mean single sequence MFE -35.75
Consensus MFE -26.14
Energy contribution -26.95
Covariance contribution 0.81
Combinations/Pair 1.14
Mean z-score -2.41
Structure conservation index 0.73
SVM decision value 1.53
SVM RNA-class probability 0.961554
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19845273 102 + 20766785
CCGAUAACUUAUGUGGCGCCAUCUAGGCAAGAAGUUAUGAGUAUAUGGUGCACUGCUUGGGAAAGGUGACCUGCUUGUCAGUUGGCGCCAAUUCAUGCAAUU
.........((((((((((((.((.((((((..(((((..((((...))))....(((....))))))))...)))))))).))))))))...))))..... ( -30.80)
>DroSec_CAF1 87399 102 + 1
CCGAUAACUUAUGUGGCGCCAUCUAUGCAAGCAGUUAUAAUAAUGUGGUGCACUGCUUGAGACAGGUGACCUGCUUGUCAGUUGGCGCCAAGUCAUGCAAUU
.........((((((((((((.((...(((((((((((.........))).)))))))).(((((((.....))))))))).))))))))...))))..... ( -36.90)
>DroEre_CAF1 88975 102 + 1
CCGAUAGUUGAUGUGGCGCCAUCUAUACAAGCAGUGCACAUGCGAUGGUUUACUGCUUGAGAGAGGUGACCUGCUUGCCAGUUGGCGCCAAUUCAUGCAAUU
......(((((..(((((((((((...(((((((((.((........)).)))))))))..)))((..(.....)..))...))))))))..))).)).... ( -38.30)
>DroYak_CAF1 86805 102 + 1
CCGAUAGUUUAUGUGGCGCCAUCUAGGCAAGCAGCGUAUAUGCGGUUGUUUACUGCUUGCGAGUGGUUACCUGCUUGACAGUUGGCGCCAAUUCGUGCAAUU
......((.....((((((((.((...(((((((((((...(((((.....))))).)))).........)))))))..)).))))))))......)).... ( -37.00)
>consensus
CCGAUAACUUAUGUGGCGCCAUCUAGGCAAGCAGUGAAAAUGAGAUGGUGCACUGCUUGAGAGAGGUGACCUGCUUGUCAGUUGGCGCCAAUUCAUGCAAUU
.............((((((((.((.(((((((((.((....))....((.((((.(....)...))))))))))))))))).))))))))............ (-26.14 = -26.95 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,845,273 – 19,845,375
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 83.50
Mean single sequence MFE -31.20
Consensus MFE -26.15
Energy contribution -26.21
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -2.57
Structure conservation index 0.84
SVM decision value 2.14
SVM RNA-class probability 0.988948
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19845273 102 - 20766785
AAUUGCAUGAAUUGGCGCCAACUGACAAGCAGGUCACCUUUCCCAAGCAGUGCACCAUAUACUCAUAACUUCUUGCCUAGAUGGCGCCACAUAAGUUAUCGG
((((..(((...((((((((.(((.((((..(((((((((....)))..))).))).(((....)))....))))..))).))))))))))).))))..... ( -23.70)
>DroSec_CAF1 87399 102 - 1
AAUUGCAUGACUUGGCGCCAACUGACAAGCAGGUCACCUGUCUCAAGCAGUGCACCACAUUAUUAUAACUGCUUGCAUAGAUGGCGCCACAUAAGUUAUCGG
...((.((((((((((((((.(((....(((((...)))))..((((((((................))))))))..))).))))))))....)))))))). ( -35.59)
>DroEre_CAF1 88975 102 - 1
AAUUGCAUGAAUUGGCGCCAACUGGCAAGCAGGUCACCUCUCUCAAGCAGUAAACCAUCGCAUGUGCACUGCUUGUAUAGAUGGCGCCACAUCAACUAUCGG
.......(((..((((((((.(((((((((((((...((((....)).))...)))...((....))..))))))).))).))))))))..)))........ ( -33.30)
>DroYak_CAF1 86805 102 - 1
AAUUGCACGAAUUGGCGCCAACUGUCAAGCAGGUAACCACUCGCAAGCAGUAAACAACCGCAUAUACGCUGCUUGCCUAGAUGGCGCCACAUAAACUAUCGG
............((((((((.(((.(((((((((....((((....).))).....)))((......))))))))..))).))))))))............. ( -32.20)
>consensus
AAUUGCAUGAAUUGGCGCCAACUGACAAGCAGGUCACCUCUCUCAAGCAGUAAACCACAGCAUAAUAACUGCUUGCAUAGAUGGCGCCACAUAAACUAUCGG
............((((((((.(((.....)))...........((((((((................))))))))......))))))))............. (-26.15 = -26.21 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:24 2006