Locus 7185

Sequence ID 3R_DroMel_CAF1
Location 18,955,327 – 18,955,471
Length 144
Max. P 0.894263
window11620 window11621

overview

Window 0

Location 18,955,327 – 18,955,440
Length 113
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.34
Mean single sequence MFE -34.50
Consensus MFE -31.49
Energy contribution -31.60
Covariance contribution 0.11
Combinations/Pair 1.11
Mean z-score -1.25
Structure conservation index 0.91
SVM decision value 0.60
SVM RNA-class probability 0.796534
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18955327 113 + 27905053
-ACUGAGAGCCGCCCAGGUAAUGGCAUUAGUUUGCUAAUCUAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGU
-..((((((((((....))..(((((((((....))))).....((((.(((..(((......)))..)))))))...))))....)))))))).....------.((((.....)))). ( -30.50)
>DroSec_CAF1 66805 113 + 1
-ACUGAGGGCCGCCCAGGUAAUGGCAUUAGUUUGUUAAUCUAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGU
-.....(((((((((......(((((((((.........)))))((((.(((..(((......)))..)))))))...))))....((.((.....)).------)).)))).))))).. ( -34.20)
>DroSim_CAF1 67958 113 + 1
-ACUGAGGGCCGCCCAGGUAAUGGCAUUAGUUUGCUAAUCUAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGU
-.....(((((((((.((...(((((......)))))((((...((((.(((..(((......)))..)))))))...((.(((.....))).))))))------)).)))).))))).. ( -36.40)
>DroEre_CAF1 66944 113 + 1
-GCUGAGGGCCGCCCAGGUAAUGGCAUUAGUUUGCUAAUCUAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGU
-.....(((((((((.((...(((((......)))))((((...((((.(((..(((......)))..)))))))...((.(((.....))).))))))------)).)))).))))).. ( -36.40)
>DroYak_CAF1 68940 113 + 1
-ACUGAGGGCCGCCCAGGUAAUGGCAUUAGUUUGCUAAUCUAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGU
-.....(((((((((.((...(((((......)))))((((...((((.(((..(((......)))..)))))))...((.(((.....))).))))))------)).)))).))))).. ( -36.40)
>DroAna_CAF1 69021 119 + 1
GGGUGUAGUUGGCCCAGGUAAUAGCAUUAGU-UGCUAAUCUAAUUUGGCGUUAAGCAUCCAAUUGCCAAACCCAACAAGUCAAAAAGGUUUUCACAGAUCGAUCCCCGGGGCUGGCCCGU
((((((..(((((((((((..(((((.....-))))).....)))))).)))))))))))....((((..(((.............((((......))))(.....))))..)))).... ( -33.10)
>consensus
_ACUGAGGGCCGCCCAGGUAAUGGCAUUAGUUUGCUAAUCUAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU______CCGGGGCUGGCCCGU
......(((((((((.((...(((((......)))))((((...((((.(((..(((......)))..)))))))...((.(((.....))).))))))......)).)))).))))).. (-31.49 = -31.60 +   0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,955,366 – 18,955,471
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -30.48
Consensus MFE -26.57
Energy contribution -26.62
Covariance contribution 0.06
Combinations/Pair 1.07
Mean z-score -1.84
Structure conservation index 0.87
SVM decision value 0.98
SVM RNA-class probability 0.894263
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18955366 105 + 27905053
UAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGUUGCAGCCCAAUGUGAAACAAUGGACUCG---------AAA
....((((.(((..(((......)))..)))))))(.((((......((((.((((...------...((((((........))))))..))))))))....)))).)---------... ( -30.50)
>DroSec_CAF1 66844 105 + 1
UAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGUUGCAGCCCAAUGUGAAACAAUGGGCACG---------AAA
....((((((.............))))))(((((.....((.....)).(((((((...------...((((((........))))))..)))))))...)))))...---------... ( -31.62)
>DroSim_CAF1 67997 105 + 1
UAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGUUGCAGCCCAAUGUGAAACAAUGGGCACG---------AAA
....((((((.............))))))(((((.....((.....)).(((((((...------...((((((........))))))..)))))))...)))))...---------... ( -31.62)
>DroEre_CAF1 66983 105 + 1
UAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGUUGCAGCCCAAUGUGAAACAAUGGGCCCG---------AAA
....((((((.............))))))(((((.....((.....)).(((((((...------...((((((........))))))..)))))))...)))))...---------... ( -30.72)
>DroYak_CAF1 68979 105 + 1
UAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU------CCGGGGCUGGCCCGUUGCAGCCCAAUGUGAAACAAUGGGCCCG---------AAA
....((((((.............))))))(((((.....((.....)).(((((((...------...((((((........))))))..)))))))...)))))...---------... ( -30.72)
>DroAna_CAF1 69060 120 + 1
UAAUUUGGCGUUAAGCAUCCAAUUGCCAAACCCAACAAGUCAAAAAGGUUUUCACAGAUCGAUCCCCGGGGCUGGCCCGUCACAGCCCAAACUGAAACAAUGGGCCCCGAAAAAAAAAAA
...(((((((.............)))))))((((.....(((....((((......))))........((((((........))))))....))).....))))................ ( -27.72)
>consensus
UAAUUUGGCGUUAAGCAUCCAAUUGCCAAGCCCAACAAGUCAAAAAGGUUUUCACAGAU______CCGGGGCUGGCCCGUUGCAGCCCAAUGUGAAACAAUGGGCCCG_________AAA
....((((.(((..(((......)))..)))))))...(((......((((.((((............((((((........))))))..))))))))....)))............... (-26.57 = -26.62 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:30 2006