Locus 3272

Sequence ID 2L_DroMel_CAF1
Location 9,483,556 – 9,483,704
Length 148
Max. P 0.837653
window5198 window5199

overview

Window 8

Location 9,483,556 – 9,483,664
Length 108
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.66
Mean single sequence MFE -22.68
Consensus MFE -19.10
Energy contribution -19.32
Covariance contribution 0.22
Combinations/Pair 1.08
Mean z-score -1.45
Structure conservation index 0.84
SVM decision value 0.74
SVM RNA-class probability 0.837653
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9483556 108 - 22407834
UCUUGCAAUUAUCGGCUUUUGCU--UACAAAUUGGUAUUGUUUACCC--AACCACAUGCGACACCUUUUUGCC--------CAUAGGUAGCCAUUUUCCUUGGUGGUCCAUUAGUUGAGC
.....((((((..((....((((--((((((..(((.((((......--........)))).)))..))))..--------..))))))((((((......))))))))..))))))... ( -21.24)
>DroEre_CAF1 42050 118 - 1
UCUUCCAAUUAUCGGCUUUUGCUUUUGCAGAUUGGCGUUGUUUGCCC--ACCCAAAUGCGACACCUUUCUACCUCUUUUCCCUUCGACUCCCAUUUUUCUUGGUGGUCCAUUAGUUGAGC
...........((((((..((.......(((..((.((((((((...--...)))..))))).))..)))...............(((..(((.......)))..)))))..)))))).. ( -25.30)
>DroYak_CAF1 42678 108 - 1
UCUUCCAAUUAUCGGCUUUUGCU--UACAGAUUGGUGUUGUUUACCCCAAACCACAUGCGACACCUUUUUCCCUUUUUC----------CCCAUUUUCCUUGGUGGUCCAUUAGUUGAGC
...........((((((..((..--...(((..((((((((................))))))))..)))........(----------((((.......))).))..))..)))))).. ( -21.49)
>consensus
UCUUCCAAUUAUCGGCUUUUGCU__UACAGAUUGGUGUUGUUUACCC__AACCACAUGCGACACCUUUUUACCU_UUU___C_U_G___CCCAUUUUCCUUGGUGGUCCAUUAGUUGAGC
...........((((((..((.......(((..((((((((................))))))))..)))....................(((((......)))))..))..)))))).. (-19.10 = -19.32 +   0.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 9,483,595 – 9,483,704
Length 109
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.97
Mean single sequence MFE -25.61
Consensus MFE -17.63
Energy contribution -18.52
Covariance contribution 0.89
Combinations/Pair 1.08
Mean z-score -1.66
Structure conservation index 0.69
SVM decision value 0.14
SVM RNA-class probability 0.602695
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9483595 109 - 22407834
UCUCUCUACCGAUUGUUGGUCUGUAAGCCAAAUUGAAUGGUCUUGCAAUUAUCGGCUUUUGCU--UACAAAUUGGUAUUGUUUACCC--AACCACAUGCGACACCUUUUUGCC-------
.........(((..((((((.(((((((((.......))).))))))...))))))..)))..--..((((..(((.((((......--........)))).)))..))))..------- ( -22.14)
>DroEre_CAF1 42090 115 - 1
---CUUUACCGUUUGUUAGUCUGUAAGCCAAAUUGAAUGGUCUUCCAAUUAUCGGCUUUUGCUUUUGCAGAUUGGCGUUGUUUGCCC--ACCCAAAUGCGACACCUUUCUACCUCUUUUC
---...........(((((((((((((((....(((.(((....))).)))..))))........)))))))))))((((((((...--...)))..))))).................. ( -23.70)
>DroYak_CAF1 42709 113 - 1
----UCAAGCGUUUGCGGGUCUGUAAGCCAAAUUGAAUGGUCUUCCAAUUAUCGGCUUUUGCU--UACAGAUUGGUGUUGUUUACCCCAAACCACAUGCGACACCUUUUUCCCUUUUUC-
----....((....))((((((((((((.(((((((.(((....)))....)))).))).)))--))))))..((((((((................)))))))).....)))......- ( -30.99)
>consensus
___CUCUACCGUUUGUUGGUCUGUAAGCCAAAUUGAAUGGUCUUCCAAUUAUCGGCUUUUGCU__UACAGAUUGGUGUUGUUUACCC__AACCACAUGCGACACCUUUUUACCU_UUU__
.................((((((((((((....(((.(((....))).)))..))))........))))))))((((((((................))))))))............... (-17.63 = -18.52 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:34 2006