Locus 8267

Sequence ID 3L_DroMel_CAF1
Location 21,718,761 – 21,718,881
Length 120
Max. P 0.633879
window13517 window13518

overview

Window 7

Location 21,718,761 – 21,718,881
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.59
Mean single sequence MFE -40.50
Consensus MFE -25.08
Energy contribution -24.88
Covariance contribution -0.19
Combinations/Pair 1.21
Mean z-score -1.39
Structure conservation index 0.62
SVM decision value 0.21
SVM RNA-class probability 0.633879
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21718761 120 + 23771897
UCCCAAACCCAGAUCGAAGCCACCAGGAACCCACGGAGAAGUGGGCGUCACCUGGAGCCCCGAAGGUGAUCUCUGGCGAAGACACACGGAGAGCCAUUAGGCGCACCUAAGCGGCGGCCA
..................(((.(((((..(((((......))))).....))))).(((.(..(((((.((((((...........))))))(((....))).)))))..).)))))).. ( -46.30)
>DroPse_CAF1 26821 93 + 1
C-------------CGCAGGCAAUCGGAACCCACCGAGAAGUGGGCGUCACCCGUUGCC-CAAAGGC------------AGACACACAUGGGGCCAUUAGGCGCACCUAAGCGGCAAGA-
(-------------(((.(((....((..(((((......)))))..)).(((((((((-....)))------------).......)))))))).(((((....))))))))).....- ( -35.41)
>DroSec_CAF1 708 119 + 1
UCCCAAACCCAGAUCGAAGCCACCAGGAACCCACGGAGAAGUGGGCGUCACUUGCAGCCCCGAAGGCGAUCUCUGGCGAGGACCCACGGAGAGCCAUUAGGCGCACCUAAGCGGCGGCA-
..................(((.((.((..(((((......))))).(((.(((((.(((.....)))(....)..))))))))))..))...(((.(((((....)))))..)))))).- ( -40.20)
>DroSim_CAF1 4873 119 + 1
UCCCAAACCCAGAUCGAAGCCACCAGGAACCCACGGAGAAGUGGGCGUCACUUGGAGCCCCGAAGGCGAUCUCUGGCGAAGACCCACGGAGAGCCAUUAGGCGCACCUAAGCGGCGGCA-
..................(((.((.((..(((((......)))))..)).(((((.((((..(.(((..(((.(((.(....)))).)))..))).)..)).)).)).))).)).))).- ( -41.40)
>DroPer_CAF1 25931 93 + 1
C-------------CGCAGGCAAUCGGAACCCACCGAGAAGUGGGCGUCACCCGUUGCC-CAAAGGC------------AGACACACAUGGGGCCAUUAGGCGCACCUAAGCGGCAAGA-
(-------------(((.(((....((..(((((......)))))..)).(((((((((-....)))------------).......)))))))).(((((....))))))))).....- ( -35.41)
>DroYak_CAF1 51319 119 + 1
UCCCAAACCCAUAUCGAAGCCACCAGGAACCCACGAAGAAGUGGGCGUCACCUGGAGCCCCGAAGGCGAACUCUAUCGAGGACCCACGGAGAGCCAUUAGGCGCACCUAAGCGGCGGGA-
((((....((...(((..((..(((((..(((((......))))).....))))).))..))).((.(..(((....)))..)))..))...(((.(((((....)))))..)))))))- ( -44.30)
>consensus
UCCCAAACCCAGAUCGAAGCCACCAGGAACCCACGGAGAAGUGGGCGUCACCUGGAGCCCCGAAGGCGAUCUCUGGCGAAGACACACGGAGAGCCAUUAGGCGCACCUAAGCGGCGGCA_
(((...................(((((..(((((......))))).....))))).(((.....)))....................)))..(((.(((((....)))))..)))..... (-25.08 = -24.88 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,718,761 – 21,718,881
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.59
Mean single sequence MFE -46.48
Consensus MFE -29.16
Energy contribution -31.10
Covariance contribution 1.94
Combinations/Pair 1.07
Mean z-score -1.23
Structure conservation index 0.63
SVM decision value -0.05
SVM RNA-class probability 0.506005
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21718761 120 - 23771897
UGGCCGCCGCUUAGGUGCGCCUAAUGGCUCUCCGUGUGUCUUCGCCAGAGAUCACCUUCGGGGCUCCAGGUGACGCCCACUUCUCCGUGGGUUCCUGGUGGCUUCGAUCUGGGUUUGGGA
...((((((.(((((....)))))))))((((.(.(((....)))).))))..(((((((((((((((((....((((((......)))))).))))).))))))))...))))..)).. ( -51.20)
>DroPse_CAF1 26821 93 - 1
-UCUUGCCGCUUAGGUGCGCCUAAUGGCCCCAUGUGUGUCU------------GCCUUUG-GGCAACGGGUGACGCCCACUUCUCGGUGGGUUCCGAUUGCCUGCG-------------G
-.....((((.((((..(((...(((....))))))..)))------------).....(-(((((((((....(((((((....))))))))))).)))))))))-------------) ( -38.10)
>DroSec_CAF1 708 119 - 1
-UGCCGCCGCUUAGGUGCGCCUAAUGGCUCUCCGUGGGUCCUCGCCAGAGAUCGCCUUCGGGGCUGCAAGUGACGCCCACUUCUCCGUGGGUUCCUGGUGGCUUCGAUCUGGGUUUGGGA
-.....((((...((.(.(((....))).).)))))).(((..(((..((((((((....))((..(.((.((.((((((......)))))))))).)..))..)))))).)))..))). ( -48.90)
>DroSim_CAF1 4873 119 - 1
-UGCCGCCGCUUAGGUGCGCCUAAUGGCUCUCCGUGGGUCUUCGCCAGAGAUCGCCUUCGGGGCUCCAAGUGACGCCCACUUCUCCGUGGGUUCCUGGUGGCUUCGAUCUGGGUUUGGGA
-.((((((((((.((.(((((....)))..((((.((((..((......))..)))).)))))).))))))((.((((((......))))))))..))))))(((((.......))))). ( -46.80)
>DroPer_CAF1 25931 93 - 1
-UCUUGCCGCUUAGGUGCGCCUAAUGGCCCCAUGUGUGUCU------------GCCUUUG-GGCAACGGGUGACGCCCACUUCUCGGUGGGUUCCGAUUGCCUGCG-------------G
-.....((((.((((..(((...(((....))))))..)))------------).....(-(((((((((....(((((((....))))))))))).)))))))))-------------) ( -38.10)
>DroYak_CAF1 51319 119 - 1
-UCCCGCCGCUUAGGUGCGCCUAAUGGCUCUCCGUGGGUCCUCGAUAGAGUUCGCCUUCGGGGCUCCAGGUGACGCCCACUUCUUCGUGGGUUCCUGGUGGCUUCGAUAUGGGUUUGGGA
-((((((((.(((((....)))))))))..(((((((((.(((....)))...))).(((((((((((((....((((((......)))))).))))).))))))))))))))...)))) ( -55.80)
>consensus
_UCCCGCCGCUUAGGUGCGCCUAAUGGCUCUCCGUGGGUCUUCGCCAGAGAUCGCCUUCGGGGCUCCAGGUGACGCCCACUUCUCCGUGGGUUCCUGGUGGCUUCGAUCUGGGUUUGGGA
.....((((.(((((....))))))))).............................(((((((((((((....((((((......)))))).))))).))))))))............. (-29.16 = -31.10 +   1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:55 2006