Locus 8221

Sequence ID X_DroMel_CAF1
Location 20,422,368 – 20,422,473
Length 105
Max. P 0.734753
window13507 window13508

overview

Window 7

Location 20,422,368 – 20,422,473
Length 105
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 87.97
Mean single sequence MFE -29.48
Consensus MFE -22.95
Energy contribution -22.95
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.78
SVM decision value 0.43
SVM RNA-class probability 0.734753
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20422368 105 + 22224390
-CCCUUUAACC-CCUUUUUGCCC-CCGUUAACUACUUUGCA-AAAAGGGUGUUAAGCCAGCGUCUGGACUUUGCCAAAUUGCUGUUGAUUGCUCGACACUCUUGGGAGU
-(((.......-(((((((((..-..((.....))...)))-))))))((((..((((((((..(((......)))...)))))......)))..))))....)))... ( -31.70)
>DroSec_CAF1 11554 101 + 1
-CCCUUUAACC-CCUUU----GC-CCGUUAACUACUUUGCC-AAAAGGGUGUUAAGCCAGCGUCUGGACUUUGCCAAAUUGCUGUUGAUUGCUCGACACUCUUGGGAGU
-(((.(((((.-.....----..-..)))))..........-..((((((((..((((((((..(((......)))...)))))......)))..)))))))))))... ( -26.70)
>DroEre_CAF1 10938 104 + 1
ACCCUUUAACUCCCUUC----GC-CCGUUAACUACUUUGCCAAAAAGGGUGUUAAGCCAGCGUCUGGACUUUGCCAAAUUGCUGUUGAUUGCUCGACACUCUUGGGAGU
........((((((...----((-..((.....))...))....((((((((..((((((((..(((......)))...)))))......)))..)))))))))))))) ( -31.80)
>DroYak_CAF1 7828 93 + 1
-----------CCCUUG----GCCCCGUUGACUACUUUGCG-AAAAGGGUGUUAAGCCAGCGUCUGGACUUUGCCAAAUUGCUGUUGAUUGCUCGACACUCUUGGCAGU
-----------......----(((.(((..........)))-..((((((((..((((((((..(((......)))...)))))......)))..)))))))))))... ( -27.70)
>consensus
_CCCUUUAACC_CCUUU____GC_CCGUUAACUACUUUGCC_AAAAGGGUGUUAAGCCAGCGUCUGGACUUUGCCAAAUUGCUGUUGAUUGCUCGACACUCUUGGGAGU
........................((((.....)).........((((((((..((((((((..(((......)))...)))))......)))..)))))))))).... (-22.95 = -22.95 +  -0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 20,422,368 – 20,422,473
Length 105
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 87.97
Mean single sequence MFE -29.80
Consensus MFE -20.35
Energy contribution -21.48
Covariance contribution 1.12
Combinations/Pair 1.04
Mean z-score -1.61
Structure conservation index 0.68
SVM decision value 0.01
SVM RNA-class probability 0.539641
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20422368 105 - 22224390
ACUCCCAAGAGUGUCGAGCAAUCAACAGCAAUUUGGCAAAGUCCAGACGCUGGCUUAACACCCUUUU-UGCAAAGUAGUUAACGG-GGGCAAAAAGG-GGUUAAAGGG-
...(((...((((((((....))....((......))........))))))...(((((.(((((((-(((...((.....))..-..)))))))))-)))))).)))- ( -34.80)
>DroSec_CAF1 11554 101 - 1
ACUCCCAAGAGUGUCGAGCAAUCAACAGCAAUUUGGCAAAGUCCAGACGCUGGCUUAACACCCUUUU-GGCAAAGUAGUUAACGG-GC----AAAGG-GGUUAAAGGG-
...(((..((((...((....))..((((..(((((......))))).))))))))...((((((((-(.(...((.....)).)-.)----)))))-)))....)))- ( -30.50)
>DroEre_CAF1 10938 104 - 1
ACUCCCAAGAGUGUCGAGCAAUCAACAGCAAUUUGGCAAAGUCCAGACGCUGGCUUAACACCCUUUUUGGCAAAGUAGUUAACGG-GC----GAAGGGAGUUAAAGGGU
(((((((((.((((..(((......((((..(((((......))))).)))))))..)))).))).((.((...((.....))..-))----.))))))))........ ( -30.60)
>DroYak_CAF1 7828 93 - 1
ACUGCCAAGAGUGUCGAGCAAUCAACAGCAAUUUGGCAAAGUCCAGACGCUGGCUUAACACCCUUUU-CGCAAAGUAGUCAACGGGGC----CAAGGG-----------
..(((((((..(((.((....)).)))....)))))))(((.((((...)))))))....(((((..-.((...((.....))...))----.)))))----------- ( -23.30)
>consensus
ACUCCCAAGAGUGUCGAGCAAUCAACAGCAAUUUGGCAAAGUCCAGACGCUGGCUUAACACCCUUUU_GGCAAAGUAGUUAACGG_GC____AAAGG_GGUUAAAGGG_
...(((....((((..(((......((((..(((((......))))).)))))))..))))(((((...((...((.....))...))....)))))........))). (-20.35 = -21.48 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:44 2006