Locus 3226

Sequence ID 2R_DroMel_CAF1
Location 11,008,930 – 11,009,020
Length 90
Max. P 0.967104
window5300 window5301

overview

Window 0

Location 11,008,930 – 11,009,020
Length 90
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 77.42
Mean single sequence MFE -21.42
Consensus MFE -14.17
Energy contribution -13.67
Covariance contribution -0.50
Combinations/Pair 1.25
Mean z-score -2.01
Structure conservation index 0.66
SVM decision value 1.38
SVM RNA-class probability 0.948770
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11008930 90 + 20766785
UCAUUUGUGCA------AUUUUUGCAAUGUGUCAAUUGCAAAUUACC-GGGUAAUGAGUAAAUUGAAAGGCAAUCGAACAAAUAUUGCGUAUUGUAA--
.......((((------((...((((((((.((.(((((.(((((((-(.....)).)).)))).....))))).))....)))))))).)))))).-- ( -19.30)
>DroPse_CAF1 144344 97 + 1
UCACU-GGGCAUUUCAUAUUUUAGCACUGUGUCAAUUGCAAAUUGCC-GAGUAAUAAGCAAAUUGAAAUGCAAUUGAACGAAUGUUGCGUAUGAGCGGC
.....-..((..(((((((..(((((...(((((((((((..((((.-.(....)..)))).......)))))))).)))..))))).)))))))..)) ( -21.50)
>DroEre_CAF1 124695 90 + 1
UCAUUUGUGCA------AUUUUUGCAAUGUGUCAAUUGCAAAUUACC-GGGUAAUGAGUAAAUUGAAAAGCAAUCGAACAAAUAUUGCGUAUUGUCA--
........(((------((...((((((((.((.(((((...(((((-(.....)).))))..(....)))))).))....)))))))).)))))..-- ( -17.60)
>DroWil_CAF1 171790 91 + 1
UUAUUUAUUCA------UUUUUUGCAAUAUGUCAAUUGCAAAUCACUUUAGUAAUAAGCAAAUUGAAAUGCAAUUGAAGAAAUGUUGCGUAUGAGCA--
.......((((------(....((((((((.(((((((((..(((.(((.((.....))))).)))..)))))))))....)))))))).)))))..-- ( -24.50)
>DroAna_CAF1 126217 86 + 1
CAAUCUUGACA------AUCUAUGCAAUGUGUCAAUUGCAAAUUACU-UAGUAAUGAGUGAAUUGAAAUGCAAUCGAACAAACAUUGCGUAUG------
...........------...((((((((((.((.((((((..(((((-((....))))))).......)))))).))....))))))))))..------ ( -24.10)
>DroPer_CAF1 121377 97 + 1
UCACU-GGGCAUUUCAUAUUUUAGCACUGUGUCAAUUGCAAAUUGCC-GAGUAAUAAGCAAAUUGAAAUGCAAUUGAACGAAUGUUGCGUAUGAGCGGC
.....-..((..(((((((..(((((...(((((((((((..((((.-.(....)..)))).......)))))))).)))..))))).)))))))..)) ( -21.50)
>consensus
UCAUUUGGGCA______AUUUUUGCAAUGUGUCAAUUGCAAAUUACC_GAGUAAUAAGCAAAUUGAAAUGCAAUCGAACAAAUAUUGCGUAUGAGCA__
.......................(((((((.((((((((..(((((....)))))..)).))))))...............)))))))........... (-14.17 = -13.67 +  -0.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,008,930 – 11,009,020
Length 90
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 77.42
Mean single sequence MFE -18.62
Consensus MFE -12.52
Energy contribution -12.80
Covariance contribution 0.28
Combinations/Pair 1.24
Mean z-score -2.17
Structure conservation index 0.67
SVM decision value 1.61
SVM RNA-class probability 0.967104
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11008930 90 - 20766785
--UUACAAUACGCAAUAUUUGUUCGAUUGCCUUUCAAUUUACUCAUUACCC-GGUAAUUUGCAAUUGACACAUUGCAAAAAU------UGCACAAAUGA
--.........(((((.(((((((((((((.....((.(((((........-))))).))))))))))......))))).))------)))........ ( -17.60)
>DroPse_CAF1 144344 97 - 1
GCCGCUCAUACGCAACAUUCGUUCAAUUGCAUUUCAAUUUGCUUAUUACUC-GGCAAUUUGCAAUUGACACAGUGCUAAAAUAUGAAAUGCCC-AGUGA
((...(((((.....((((.(((((((((((.......(((((........-)))))..))))))))).))))))......)))))...))..-..... ( -19.40)
>DroEre_CAF1 124695 90 - 1
--UGACAAUACGCAAUAUUUGUUCGAUUGCUUUUCAAUUUACUCAUUACCC-GGUAAUUUGCAAUUGACACAUUGCAAAAAU------UGCACAAAUGA
--.........(((((.(((((((((((((........(((((........-)))))...))))))))......))))).))------)))........ ( -18.00)
>DroWil_CAF1 171790 91 - 1
--UGCUCAUACGCAACAUUUCUUCAAUUGCAUUUCAAUUUGCUUAUUACUAAAGUGAUUUGCAAUUGACAUAUUGCAAAAAA------UGAAUAAAUAA
--(((......)))..((((.((((.(((((..((((((.((..(((((....)))))..)))))))).....)))))....------)))).)))).. ( -18.80)
>DroAna_CAF1 126217 86 - 1
------CAUACGCAAUGUUUGUUCGAUUGCAUUUCAAUUCACUCAUUACUA-AGUAAUUUGCAAUUGACACAUUGCAUAGAU------UGUCAAGAUUG
------.....(((((((....(((((((((....((((.(((........-)))))))))))))))).)))))))......------........... ( -18.50)
>DroPer_CAF1 121377 97 - 1
GCCGCUCAUACGCAACAUUCGUUCAAUUGCAUUUCAAUUUGCUUAUUACUC-GGCAAUUUGCAAUUGACACAGUGCUAAAAUAUGAAAUGCCC-AGUGA
((...(((((.....((((.(((((((((((.......(((((........-)))))..))))))))).))))))......)))))...))..-..... ( -19.40)
>consensus
__UGCUCAUACGCAACAUUUGUUCAAUUGCAUUUCAAUUUACUCAUUACUC_GGUAAUUUGCAAUUGACACAUUGCAAAAAU______UGCACAAAUGA
...........((((....((((((((((((.......(((((.........)))))..))))))))).)))))))....................... (-12.52 = -12.80 +   0.28)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:29 2006