Locus 7725

Sequence ID X_DroMel_CAF1
Location 19,232,532 – 19,232,648
Length 116
Max. P 0.977109
window12675 window12676

overview

Window 5

Location 19,232,532 – 19,232,648
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.39
Mean single sequence MFE -30.31
Consensus MFE -30.46
Energy contribution -30.21
Covariance contribution -0.25
Combinations/Pair 1.03
Mean z-score -1.39
Structure conservation index 1.00
SVM decision value 0.19
SVM RNA-class probability 0.625331
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19232532 116 + 22224390
ACGCGUUCAAUUAAUUUAAAUGACUAAUGAAUGCCGUCGAUGAUUCAACGGCACCAGCUGCAUGCACUCGCAUUUGAUUGAGCGCCCACACCGGCUAUCAAUUUUCUCGCAAGUCG----
..((((((((((((.................((((((.((....)).))))))........((((....))))))))))))))))......(((((...............)))))---- ( -30.66)
>DroSec_CAF1 19473 116 + 1
ACGCGUUCAAUUAAUUUAAAUGACUAAUGAAUGCCGUCGAUGAUUCAACGGCACCAGCUGCAUGCACUCGCAUUUGAUUGAGCGCCCCCACCGGCUAUCAAUUUCCUCGCAAGUCG----
..((((((((((((.................((((((.((....)).))))))........((((....))))))))))))))))......(((((...............)))))---- ( -30.66)
>DroEre_CAF1 17563 120 + 1
ACGCGUUCAAUUAAUUUAAAUGACUAAUGAAUGCCGUCGAUGAUUCAACGGCACCAGCUGCAUGCACUCGCAUUUGAUUGAGCGCCCCCACUGGCUAUCAAUUUCCUCACAAGUCGAGAA
..((((((((((((.................((((((.((....)).))))))........((((....)))))))))))))))).....((((((...............)))).)).. ( -29.96)
>DroYak_CAF1 18386 120 + 1
GCGCGUUCAAUUAAUUUAAAUGACUAAUGAAUGCCGUCGAUGAUUCAACGGCACCAGCUGCAUGCACUCGCAUUUGAUUGAGCGCCCCCACUGGCUAUCAAUUUCCUCACAAGUCGAGAA
..((((((((((((.................((((((.((....)).))))))........((((....)))))))))))))))).....((((((...............)))).)).. ( -29.96)
>consensus
ACGCGUUCAAUUAAUUUAAAUGACUAAUGAAUGCCGUCGAUGAUUCAACGGCACCAGCUGCAUGCACUCGCAUUUGAUUGAGCGCCCCCACCGGCUAUCAAUUUCCUCACAAGUCG____
..((((((((((((.................((((((.((....)).))))))........((((....))))))))))))))))......(((((...............))))).... (-30.46 = -30.21 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,232,532 – 19,232,648
Length 116
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 95.39
Mean single sequence MFE -39.45
Consensus MFE -38.35
Energy contribution -38.60
Covariance contribution 0.25
Combinations/Pair 1.03
Mean z-score -2.25
Structure conservation index 0.97
SVM decision value 1.78
SVM RNA-class probability 0.977109
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19232532 116 - 22224390
----CGACUUGCGAGAAAAUUGAUAGCCGGUGUGGGCGCUCAAUCAAAUGCGAGUGCAUGCAGCUGGUGCCGUUGAAUCAUCGACGGCAUUCAUUAGUCAUUUAAAUUAAUUGAACGCGU
----......(((....(((((((.((((((((..((((((..........))))))..))).)))))((((((((....)))))))).................)))))))...))).. ( -38.50)
>DroSec_CAF1 19473 116 - 1
----CGACUUGCGAGGAAAUUGAUAGCCGGUGGGGGCGCUCAAUCAAAUGCGAGUGCAUGCAGCUGGUGCCGUUGAAUCAUCGACGGCAUUCAUUAGUCAUUUAAAUUAAUUGAACGCGU
----......(((....(((((((.((((((....((((((..........)))))).....))))))((((((((....)))))))).................)))))))...))).. ( -37.90)
>DroEre_CAF1 17563 120 - 1
UUCUCGACUUGUGAGGAAAUUGAUAGCCAGUGGGGGCGCUCAAUCAAAUGCGAGUGCAUGCAGCUGGUGCCGUUGAAUCAUCGACGGCAUUCAUUAGUCAUUUAAAUUAAUUGAACGCGU
.....((((.(((((..........((((((....((((((..........)))))).....))))))((((((((....)))))))).))))).))))..................... ( -40.70)
>DroYak_CAF1 18386 120 - 1
UUCUCGACUUGUGAGGAAAUUGAUAGCCAGUGGGGGCGCUCAAUCAAAUGCGAGUGCAUGCAGCUGGUGCCGUUGAAUCAUCGACGGCAUUCAUUAGUCAUUUAAAUUAAUUGAACGCGC
.....((((.(((((..........((((((....((((((..........)))))).....))))))((((((((....)))))))).))))).))))..................... ( -40.70)
>consensus
____CGACUUGCGAGGAAAUUGAUAGCCAGUGGGGGCGCUCAAUCAAAUGCGAGUGCAUGCAGCUGGUGCCGUUGAAUCAUCGACGGCAUUCAUUAGUCAUUUAAAUUAAUUGAACGCGU
.....((((.(((((..........((((((....((((((..........)))))).....))))))((((((((....)))))))).))))).))))..................... (-38.35 = -38.60 +   0.25)

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 12:46:04 2006