Locus 6215

Sequence ID 3R_DroMel_CAF1
Location 16,214,983 – 16,215,171
Length 188
Max. P 0.834434
window10137 window10138

overview

Window 7

Location 16,214,983 – 16,215,078
Length 95
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 81.01
Mean single sequence MFE -27.23
Consensus MFE -18.91
Energy contribution -19.18
Covariance contribution 0.28
Combinations/Pair 1.14
Mean z-score -1.63
Structure conservation index 0.69
SVM decision value 0.39
SVM RNA-class probability 0.716915
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16214983 95 - 27905053
UAUCGAAUUAGAGGUGUUUAGCCACGGCAAAGUCUGCGAAAGCCGCAACUUUGUUGGCACUCGGCCGAACUCGUUAAAAUUGACACCGU----ACGAAC----
..(((.......((((((..((((..(((((((.((((.....))))))))))))))).......((....))........))))))..----.)))..---- ( -26.60)
>DroPse_CAF1 24796 102 - 1
UAUUGAAUUAGAAGCGUUUAGCCACGGCAAAGUCGGCGAAAGCCGCAACUUUGAUGGCACUUUGCUAAACUCGUUAA-AUUGACAACGGCAACAGGAACAGGA
...............((((.((((...((((((((((....))))..)))))).)))).(((((((....(((....-..)))....))))).)))))).... ( -29.70)
>DroEre_CAF1 15685 92 - 1
UAUCGAAUUAGAGGUGUUUAGCCACGGCAAAGUCGGCGAAAGCCGCAACUUUGUUGCCACUCAGCCGAACUCGUUAGAACUGACACCGU----AG---A----
............((((((.((...((((..(((.(((....)))(((((...))))).)))..))))...((....)).))))))))..----..---.---- ( -29.00)
>DroYak_CAF1 11159 92 - 1
UAUCGAAUUAGAGGUAUUUAGCCACGGCAAAGUCAGCGAAAGCCGCAACUUUGUCGGCACUUAGGCGAACUCGUUAAAAUUGACACCGU----AG---A----
............(((.....(((..(((((((((.((....)).)..))))))))))).....((((....)))).........)))..----..---.---- ( -23.00)
>DroAna_CAF1 27277 91 - 1
UAUUGAAUUAGGAGCGUUUAGCCACGGCAAAGUCGCUGAAAGCCGCAACUUUGAUGGCACUCAGCUGAACUCGUUAA-AUCGACACGAC----UC---C----
..........(((((((...((....))...((((((((..((((((....)).))))..))))).(....).....-...)))))).)----))---)---- ( -25.40)
>DroPer_CAF1 29969 102 - 1
UAUUGAAUUAGAAGCGUUUAGCCACGGCAAAGUCGGCGAAAGCCGCAACUUUGAUGGCACUUUGCUAAACUCGUUAA-AUUGACAACGGCAACAGGAACAGGA
...............((((.((((...((((((((((....))))..)))))).)))).(((((((....(((....-..)))....))))).)))))).... ( -29.70)
>consensus
UAUCGAAUUAGAAGCGUUUAGCCACGGCAAAGUCGGCGAAAGCCGCAACUUUGAUGGCACUCAGCCGAACUCGUUAA_AUUGACACCGU____AG___C____
............(((.....((((...((((((((((....))))..)))))).)))).....)))......((((....))))................... (-18.91 = -19.18 +   0.28)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,215,078 – 16,215,171
Length 93
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 74.08
Mean single sequence MFE -22.28
Consensus MFE -10.51
Energy contribution -11.15
Covariance contribution 0.64
Combinations/Pair 1.24
Mean z-score -1.98
Structure conservation index 0.47
SVM decision value 0.73
SVM RNA-class probability 0.834434
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16215078 93 - 27905053
G--AAAGAGAAACUUCCAGAAACAUGUUU-UAGGUUUAAC-------CCAAAUUCAAUUAAAUCAAAUUGAGUUUGAGCGACUUAUACUUGGGCGCGCCUUGA
.--.....(((((............))))-)((((.....-------.(((((((((((......))))))))))).(((.((((....)))))))))))... ( -20.30)
>DroSec_CAF1 15387 93 - 1
G--AACGAGAAACUUCCAGAAACAUGUUU-UAGGUUUAAC-------CCAAAUUCAAUUAAAUCAAAUUGAGUUUCUGCGACUUAUACUUGGUCGCGCCUUGA
.--..((((........((((((......-..((......-------))....((((((......))))))))))))((((((.......))))))..)))). ( -22.40)
>DroSim_CAF1 13813 93 - 1
G--AACGAGAAACUUCCAGAAACAUGUUU-UAGGUUUAAC-------CCAAAUUCAAUUAAAUCAAAUUGAGUUUCAGCGACUUAUACUUGGGCGCGCCUUGA
.--..((((.........(((((......-..((......-------))....((((((......))))))))))).(((.((((....)))))))..)))). ( -19.00)
>DroEre_CAF1 15777 96 - 1
ACCAUAUAUAAAGCGCCAGAAAGGUGUUUUAAGGUUUAGC-------CCAAAUUCAAUUAAAUCAAAUUGAGUUUCGGAGACUUAUACUUGGGCGCGCCUUGA
........(((((((((.....)))))))))((((...((-------((((((((((((......)))))))))..(....).......)))))..))))... ( -30.40)
>DroYak_CAF1 11251 96 - 1
ACAAUAUAUAAACUGCCAGAACCAUGUUUCUAGGCUUAAC-------CCAAAUUCAAUUAAAUCAAAUUGAGUUUCAGCGACUUAUACUUGGGCGCGUCUAGA
............................(((((((.....-------..((((((((((......))))))))))..(((.((((....)))))))))))))) ( -21.10)
>DroAna_CAF1 27368 93 - 1
ACCACAUAUUC----------UGGCGUCUUAUUUGUCAGCCUCUGCUGCCAAUUCAAUUAGGGAAAAUUGAAUUUCUGAGACUCAGUCUCACGCUCGCGUUGA
..........(----------(((.((((((.(((.((((....)))).)))(((((((......)))))))....))))))))))..(((((....)).))) ( -20.50)
>consensus
A__AAAGAGAAACUUCCAGAAACAUGUUU_UAGGUUUAAC_______CCAAAUUCAAUUAAAUCAAAUUGAGUUUCAGCGACUUAUACUUGGGCGCGCCUUGA
...............................((((..............((((((((((......))))))))))..(((.((((....)))))))))))... (-10.51 = -11.15 +   0.64)

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 12:15:48 2006