Locus 5003

Sequence ID 3R_DroMel_CAF1
Location 13,181,916 – 13,182,020
Length 104
Max. P 0.991084
window8179 window8180

overview

Window 9

Location 13,181,916 – 13,182,020
Length 104
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 74.48
Mean single sequence MFE -28.87
Consensus MFE -19.64
Energy contribution -20.08
Covariance contribution 0.45
Combinations/Pair 1.15
Mean z-score -2.35
Structure conservation index 0.68
SVM decision value 2.25
SVM RNA-class probability 0.991084
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13181916 104 + 27905053
UUUUAUUUUAUUU-UGCGUGGAGUUGAGUGAGUUAGCGUUGGCAUUUGUCAGUUGCUAGCUGUCAGCGCUCACUUCCUG-CCACGCCCCUUUUCGCCACC------CCCUAC
.............-.((((((....((((((....(((((((((.(((.(....).))).)))))))))))))))....-))))))..............------...... ( -30.40)
>DroVir_CAF1 194502 83 + 1
UUUUAUUUCAUAU-UGCGUGGAGUUGAGUGAGUUAGCGCUGGCAUUUGUCAGUGGUUGCCUGUCAGCGCGCACUUCCUCCACUU----------------------------
.............-...((((((..(((((.....(((((((((...((........)).))))))))).))))).))))))..---------------------------- ( -29.50)
>DroGri_CAF1 192368 83 + 1
UUUUAUUUAAUAU-UACGUGGAGUUGAGUGAGUUAACGUUGGCAUUUGUCAGUUGCUGGCUGUCAGCGCGCACUUCCUCCACUU----------------------------
.............-...((((((..(((((......((((((((...(((((...)))))))))))))..))))).))))))..---------------------------- ( -27.60)
>DroSec_CAF1 209843 104 + 1
UUUUAUUUUAUUU-UGCGUGGAGUUGAGUGAGUUAGCGUUGGCAUUUGUCAGUUGCUAGCUGUCAGCGCUCACUUCCUG-CCACGCCCCCUUUCGCCAAC------CCCCAC
.............-.((((((....((((((....(((((((((.(((.(....).))).)))))))))))))))....-))))))..............------...... ( -30.40)
>DroWil_CAF1 195204 82 + 1
-UUUAUUUUAUUUCUGCGUAGAGUUGAGUGAGUUAGCGUUGGCAUUUGUCAGUUGCUGGCUGUCAGCGCGGACUUCC-G-CCACA---------------------------
-((.(((((((......))))))).))(..((((.(((((((((...(((((...)))))))))))))).))))..)-.-.....--------------------------- ( -24.40)
>DroAna_CAF1 196274 105 + 1
UUUUAUUUCAUUU-UGCGUGGAGUUGAGUGAGUUAGCGUUGGCAUUUGUCAGUUGCUGGCUGUCAGCGCUUACUUCCUG-CC-----CCCAUCCAACCCGACCGCCCCCUUA
.............-.((((((.((((((..(((.((((((((((...(((((...))))))))))))))).)))..)).-..-----......)))))))..)))....... ( -30.90)
>consensus
UUUUAUUUUAUUU_UGCGUGGAGUUGAGUGAGUUAGCGUUGGCAUUUGUCAGUUGCUGGCUGUCAGCGCGCACUUCCUG_CCAC____________________________
....(((((((......)))))))..((..(((..(((((((((...(((((...))))))))))))))..)))..)).................................. (-19.64 = -20.08 +   0.45)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,181,916 – 13,182,020
Length 104
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 74.48
Mean single sequence MFE -26.39
Consensus MFE -7.58
Energy contribution -7.25
Covariance contribution -0.33
Combinations/Pair 1.21
Mean z-score -2.50
Structure conservation index 0.29
SVM decision value 0.56
SVM RNA-class probability 0.783241
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13181916 104 - 27905053
GUAGGG------GGUGGCGAAAAGGGGCGUGG-CAGGAAGUGAGCGCUGACAGCUAGCAACUGACAAAUGCCAACGCUAACUCACUCAACUCCACGCA-AAAUAAAAUAAAA
((..((------(((..........(((((((-((....((.((.((((.....))))..)).))...)))).)))))..........)))))..)).-............. ( -28.55)
>DroVir_CAF1 194502 83 - 1
----------------------------AAGUGGAGGAAGUGCGCGCUGACAGGCAACCACUGACAAAUGCCAGCGCUAACUCACUCAACUCCACGCA-AUAUGAAAUAAAA
----------------------------..((((((..((((.((((((.((.(((.....)).)...)).)))))).....))))...))))))...-............. ( -25.00)
>DroGri_CAF1 192368 83 - 1
----------------------------AAGUGGAGGAAGUGCGCGCUGACAGCCAGCAACUGACAAAUGCCAACGUUAACUCACUCAACUCCACGUA-AUAUUAAAUAAAA
----------------------------..((((((..((((.(.((((.....))))...((((..........)))).).))))...))))))...-............. ( -20.20)
>DroSec_CAF1 209843 104 - 1
GUGGGG------GUUGGCGAAAGGGGGCGUGG-CAGGAAGUGAGCGCUGACAGCUAGCAACUGACAAAUGCCAACGCUAACUCACUCAACUCCACGCA-AAAUAAAAUAAAA
((((((------(((((.(..((..(((((((-((....((.((.((((.....))))..)).))...)))).)))))..))..))))))))).))).-............. ( -37.00)
>DroWil_CAF1 195204 82 - 1
---------------------------UGUGG-C-GGAAGUCCGCGCUGACAGCCAGCAACUGACAAAUGCCAACGCUAACUCACUCAACUCUACGCAGAAAUAAAAUAAA-
---------------------------(((((-(-((....))))((((.....))))....................................)))).............- ( -16.30)
>DroAna_CAF1 196274 105 - 1
UAAGGGGGCGGUCGGGUUGGAUGGG-----GG-CAGGAAGUAAGCGCUGACAGCCAGCAACUGACAAAUGCCAACGCUAACUCACUCAACUCCACGCA-AAAUGAAAUAAAA
...((((..(((.(((((((.((..-----((-((....((.((.((((.....))))..)).))...))))..))))))))))))...)))).....-............. ( -31.30)
>consensus
____________________________GUGG_CAGGAAGUGAGCGCUGACAGCCAGCAACUGACAAAUGCCAACGCUAACUCACUCAACUCCACGCA_AAAUAAAAUAAAA
...................................(((.((....((((.....))))...(((.....((....))....)))....)))))................... ( -7.58 =  -7.25 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:02 2006