Locus 4933

Sequence ID 2R_DroMel_CAF1
Location 16,098,900 – 16,098,997
Length 97
Max. P 0.974147
window7906 window7907

overview

Window 6

Location 16,098,900 – 16,098,997
Length 97
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 78.74
Mean single sequence MFE -24.35
Consensus MFE -13.95
Energy contribution -14.45
Covariance contribution 0.50
Combinations/Pair 1.22
Mean z-score -2.40
Structure conservation index 0.57
SVM decision value 1.25
SVM RNA-class probability 0.936002
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16098900 97 + 20766785
AAUGAUUCGUUUUAAAGUAAUCAGGCCGUCUCAAGUGCAAUACUAGUUA-AA--AAAUGCAGAAUUGCCCUUGUGACGAACCAAAUCGCUUCAAACUUAA
........((((..(((..((..((.((((.((((.(((((.((.((..-..--....)))).))))).)))).))))..))..))..))).)))).... ( -22.90)
>DroSec_CAF1 20290 97 + 1
GAUGAUUCUUUUUAAAGUAAUUCGGCCGUCUCAAGUGCAAUACAAGUUU-AA--AAAUGCAGAAUUGCCCUUGUGACGAACCAAAACGCUUUAAACUUAA
..........((((((((..((.((.((((.((((.(((((....((..-..--....))...))))).)))).))))..)).))..))))))))..... ( -21.40)
>DroSim_CAF1 20483 97 + 1
GAUGAUUCUUUUUAAAGUAAUUCGGCCGUCUCAAGUGCAAUACAAGUUU-AA--AAAUGCAGAAUUGCCCUUGUGACGAACCAAAACGCUUUAAACUUAA
..........((((((((..((.((.((((.((((.(((((....((..-..--....))...))))).)))).))))..)).))..))))))))..... ( -21.40)
>DroEre_CAF1 21582 100 + 1
AAUGUUUUGUUUAAAAGUAAUCCGGCCGUCUCAAGUGCAAUACUAGCUUAAAAAAAAUGCAGAAUUGCUCCUGGUACGAACCGAAGCGCUUCAAACUUAA
........((((..((((..(.(((.(((..((.(.(((((.((.((...........)))).))))).).))..)))..))).)..)))).)))).... ( -19.10)
>DroYak_CAF1 20762 98 + 1
AAUGAUUCGUUUAAAAGUAAUCCGGCCGUCUCAAGUGCAAUACUAGCUUUAA--UAGUGCAGAAUUGCUCCUGGGACGAACCGAAGCGCUUCAAACGCAA
.......(((((..((((..(.(((.(((((((.(.(((((.((.(((....--.)))..)).))))).).)))))))..))).)..)))).)))))... ( -27.50)
>DroAna_CAF1 21116 98 + 1
GCCGCUUAGAUCCACUAUAUUUCGGCCGUCUCAAGUGCAAUACUUGUAUAAA--AAACCAAGAGUUGCACUAGAGACGCACCGGAAAAUUGUAGAUGUUU
.........(((.((.((.((((((.((((((.((((((((.((((......--....)))).)))))))).))))))..)))))).)).)).))).... ( -33.80)
>consensus
AAUGAUUCGUUUUAAAGUAAUCCGGCCGUCUCAAGUGCAAUACUAGUUU_AA__AAAUGCAGAAUUGCCCUUGUGACGAACCAAAACGCUUCAAACUUAA
..............((((.....((.((((.((((.(((((.((.((...........)))).))))).)))).))))..)).....))))......... (-13.95 = -14.45 +   0.50)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,098,900 – 16,098,997
Length 97
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 78.74
Mean single sequence MFE -29.47
Consensus MFE -23.78
Energy contribution -23.46
Covariance contribution -0.33
Combinations/Pair 1.31
Mean z-score -3.28
Structure conservation index 0.81
SVM decision value 1.72
SVM RNA-class probability 0.974147
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16098900 97 - 20766785
UUAAGUUUGAAGCGAUUUGGUUCGUCACAAGGGCAAUUCUGCAUUU--UU-UAACUAGUAUUGCACUUGAGACGGCCUGAUUACUUUAAAACGAAUCAUU
.....(((((((..(((.(((.((((.((((.(((((.(((.....--..-....))).))))).)))).))))))).)))..))))))).......... ( -27.70)
>DroSec_CAF1 20290 97 - 1
UUAAGUUUAAAGCGUUUUGGUUCGUCACAAGGGCAAUUCUGCAUUU--UU-AAACUUGUAUUGCACUUGAGACGGCCGAAUUACUUUAAAAAGAAUCAUC
.....(((((((...((((((.((((.((((.(((((...(((...--..-.....)))))))).)))).))))))))))...))))))).......... ( -26.40)
>DroSim_CAF1 20483 97 - 1
UUAAGUUUAAAGCGUUUUGGUUCGUCACAAGGGCAAUUCUGCAUUU--UU-AAACUUGUAUUGCACUUGAGACGGCCGAAUUACUUUAAAAAGAAUCAUC
.....(((((((...((((((.((((.((((.(((((...(((...--..-.....)))))))).)))).))))))))))...))))))).......... ( -26.40)
>DroEre_CAF1 21582 100 - 1
UUAAGUUUGAAGCGCUUCGGUUCGUACCAGGAGCAAUUCUGCAUUUUUUUUAAGCUAGUAUUGCACUUGAGACGGCCGGAUUACUUUUAAACAAAACAUU
....((((((((...((((((.(((..((((.(((((.((((...........)).)).))))).))))..)))))))))....))))))))........ ( -27.60)
>DroYak_CAF1 20762 98 - 1
UUGCGUUUGAAGCGCUUCGGUUCGUCCCAGGAGCAAUUCUGCACUA--UUAAAGCUAGUAUUGCACUUGAGACGGCCGGAUUACUUUUAAACGAAUCAUU
...(((((((((...((((((.((((.((((.(((((.((((....--.....)).)).))))).)))).))))))))))....)))))))))....... ( -32.50)
>DroAna_CAF1 21116 98 - 1
AAACAUCUACAAUUUUCCGGUGCGUCUCUAGUGCAACUCUUGGUUU--UUUAUACAAGUAUUGCACUUGAGACGGCCGAAAUAUAGUGGAUCUAAGCGGC
....((((((.((.((.((((.((((((.(((((((..((((....--......))))..))))))).)))))))))).)).)).))))))......... ( -36.20)
>consensus
UUAAGUUUAAAGCGUUUCGGUUCGUCACAAGGGCAAUUCUGCAUUU__UU_AAACUAGUAUUGCACUUGAGACGGCCGAAUUACUUUAAAACGAAUCAUC
.....(((((((...((((((.((((.((((.(((((.(((..............))).))))).)))).))))))))))...))))))).......... (-23.78 = -23.46 +  -0.33)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:38 2006