Locus 7885

Sequence ID 3R_DroMel_CAF1
Location 21,128,047 – 21,128,139
Length 92
Max. P 0.968628
window12700 window12701

overview

Window 0

Location 21,128,047 – 21,128,139
Length 92
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 78.94
Mean single sequence MFE -19.12
Consensus MFE -9.62
Energy contribution -9.62
Covariance contribution 0.00
Combinations/Pair 1.24
Mean z-score -2.37
Structure conservation index 0.50
SVM decision value 1.26
SVM RNA-class probability 0.936973
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21128047 92 + 27905053
AGCUUUUAAUCGUUAAAACAAUAGUCAACAAGACCAUCUGUGAAUUUCAGUGAGUUUCAAAGAGCUUAAAAGCUCAAUGAAAAUAAAAA------------CAA
(((((((((.(............(((.....)))..(((.((((.(((...))).)))).)))).)))))))))...............------------... ( -14.20)
>DroSec_CAF1 34950 104 + 1
AGCUUUUCAUCGUUAAAACAAUUGUCAACAAGGCCAUCUGUGAAUUUCAGUGAGUUUCAAAGAGCUUAAAAGCUCAAUGAAAAAAAAAAAAACAGAAAAGCCAA
.(((((((.........(((((.(((.....))).)).)))...(((((.(((((((..((....))..))))))).)))))............)))))))... ( -20.70)
>DroSim_CAF1 41898 103 + 1
AGCUUUUCAUCGUUAAAACAAUAGUCAACAAGGCCAUCUGUGAAUUUCAGUAAGUUUCAAAGAGCUUAAAAGCUCAAUGAAAAAA-ACAAAACAGAAGAGCCAA
.(((((((.........(((((.(((.....))).)).)))........((...(((((..(((((....)))))..)))))...-))......)))))))... ( -21.60)
>DroEre_CAF1 35531 96 + 1
AGCUUUUCGUCUUCGAAACAAUAGUAAACAAGACCAUCUGUGAAAUGCAGUGAGUUUCAAAGAGCUUGAAAGCUCAAUCAAAACA-UC------GAAAAU-UCA
...((((((.....(((((....(....).....((.((((.....)))))).)))))...(((((....)))))..........-.)------))))).-... ( -18.00)
>DroYak_CAF1 37051 89 + 1
AGCUUUUUGUCGUCGAAACAAUAGAAAACAAGACCAUCUGUGAAUUUUGUUGAGUUUCAAAGAGCUUGAAAGCUCGAUGAAA--------------AAAU-UCA
.(..((((.(((((((((((((((((.(((........)))...)))))))..)))))...(((((....)))))))))).)--------------))).-.). ( -21.10)
>consensus
AGCUUUUCAUCGUUAAAACAAUAGUCAACAAGACCAUCUGUGAAUUUCAGUGAGUUUCAAAGAGCUUAAAAGCUCAAUGAAAAAA_AAA_____GAAAAG_CAA
.........(((((................((((...(((.......)))...))))....(((((....))))))))))........................ ( -9.62 =  -9.62 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,128,047 – 21,128,139
Length 92
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 78.94
Mean single sequence MFE -22.34
Consensus MFE -10.56
Energy contribution -11.32
Covariance contribution 0.76
Combinations/Pair 1.06
Mean z-score -2.56
Structure conservation index 0.47
SVM decision value 1.63
SVM RNA-class probability 0.968628
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21128047 92 - 27905053
UUG------------UUUUUAUUUUCAUUGAGCUUUUAAGCUCUUUGAAACUCACUGAAAUUCACAGAUGGUCUUGUUGACUAUUGUUUUAACGAUUAAAAGCU
..(------------((((((.(((((..(((((....)))))..))))).....((((((.....(((((((.....))))))))))))).....))))))). ( -22.50)
>DroSec_CAF1 34950 104 - 1
UUGGCUUUUCUGUUUUUUUUUUUUUCAUUGAGCUUUUAAGCUCUUUGAAACUCACUGAAAUUCACAGAUGGCCUUGUUGACAAUUGUUUUAACGAUGAAAAGCU
..((((..(((((.((((....(((((..(((((....)))))..)))))......))))...))))).))))..(((....(((((....)))))....))). ( -26.00)
>DroSim_CAF1 41898 103 - 1
UUGGCUCUUCUGUUUUGU-UUUUUUCAUUGAGCUUUUAAGCUCUUUGAAACUUACUGAAAUUCACAGAUGGCCUUGUUGACUAUUGUUUUAACGAUGAAAAGCU
..((((..(((((...((-((((((((..(((((....)))))..)))))......)))))..))))).))))..(((...((((((....))))))...))). ( -26.70)
>DroEre_CAF1 35531 96 - 1
UGA-AUUUUC------GA-UGUUUUGAUUGAGCUUUCAAGCUCUUUGAAACUCACUGCAUUUCACAGAUGGUCUUGUUUACUAUUGUUUCGAAGACGAAAAGCU
...-.(((((------((-.((((..(..(((((....))))).)..))))))....((((.....))))(((((....((....))....))))))))))... ( -20.90)
>DroYak_CAF1 37051 89 - 1
UGA-AUUU--------------UUUCAUCGAGCUUUCAAGCUCUUUGAAACUCAACAAAAUUCACAGAUGGUCUUGUUUUCUAUUGUUUCGACGACAAAAAGCU
(((-((((--------------(((((..(((((....)))))..)))).......))))))))...........(((((...(((((.....)))))))))). ( -15.61)
>consensus
UUG_AUUUUC_____UGU_UUUUUUCAUUGAGCUUUUAAGCUCUUUGAAACUCACUGAAAUUCACAGAUGGUCUUGUUGACUAUUGUUUUAACGAUGAAAAGCU
......................(((((..(((((....)))))..))))).......................(((((((........)))))))......... (-10.56 = -11.32 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:10 2006