Locus 3762

Sequence ID X_DroMel_CAF1
Location 9,972,673 – 9,972,780
Length 107
Max. P 0.846403
window6178 window6179

overview

Window 8

Location 9,972,673 – 9,972,780
Length 107
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 95.64
Mean single sequence MFE -31.62
Consensus MFE -29.62
Energy contribution -30.50
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -1.48
Structure conservation index 0.94
SVM decision value 0.13
SVM RNA-class probability 0.597065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9972673 107 + 22224390
AAAUGCAUGCUACUAACUCCACGACCGCAGGUGUACUUUUGCGGCAGCGAGAGUGAGACGGCUGUCAUCGCAGUCGUUGCAUGUGUAAUUUGCUGAAUUUUUAAUUA
..((((((((.....(((((.(..(((((((......)))))))..).).))))..(((((((((....)))))))))))))))))..................... ( -36.50)
>DroSec_CAF1 18072 107 + 1
AAAUGCAUGCUACUAACUCCACGACCGCAGGUGUACUUUUGCGGCAGCGAGAGUGAGACGGCUGUCAUCGCAGUCGUUGCAUGUGUAAUUUGCGGAAUUUUUAAUUA
..((((((((.....(((((.(..(((((((......)))))))..).).))))..(((((((((....)))))))))))))))))..................... ( -36.50)
>DroEre_CAF1 5472 107 + 1
AAGUGCAUGCUACUAACUCCACGACCGCAGGUGUACCCUUACGGCAGCGAGAGUGAGACGGCUGUCAACGCAGUCGUUGCAUGUGUAAUUUGCUGAAUUUUUAAUUA
..(..(((((.....(((((.(..(((.(((.....)))..)))..).).))))..(((((((((....))))))))))))))..)..................... ( -31.60)
>DroYak_CAF1 5652 107 + 1
AAAUGCAUACUACUAACUCCACGACCGCAGGUGUACUUUUACGACAACGAGAGUGAGACGGCUGUCAUCGCAGUCGUUGCAUGUGUAAUUUGCUGAAUUUUUAAUUA
...................(((((..(((.((((((((((........))))))..(((((((((....))))))))))))).)))...))).))............ ( -21.90)
>consensus
AAAUGCAUGCUACUAACUCCACGACCGCAGGUGUACUUUUACGGCAGCGAGAGUGAGACGGCUGUCAUCGCAGUCGUUGCAUGUGUAAUUUGCUGAAUUUUUAAUUA
..(..(((((.....(((((.(..(((((((......)))))))..).).))))..(((((((((....))))))))))))))..)..................... (-29.62 = -30.50 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 9,972,673 – 9,972,780
Length 107
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 95.64
Mean single sequence MFE -30.10
Consensus MFE -26.81
Energy contribution -26.00
Covariance contribution -0.81
Combinations/Pair 1.16
Mean z-score -1.97
Structure conservation index 0.89
SVM decision value 0.77
SVM RNA-class probability 0.846403
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9972673 107 - 22224390
UAAUUAAAAAUUCAGCAAAUUACACAUGCAACGACUGCGAUGACAGCCGUCUCACUCUCGCUGCCGCAAAAGUACACCUGCGGUCGUGGAGUUAGUAGCAUGCAUUU
........................(((((.(((((.((.......)).)))..((((.(((.((((((..........)))))).)))))))..)).)))))..... ( -30.00)
>DroSec_CAF1 18072 107 - 1
UAAUUAAAAAUUCCGCAAAUUACACAUGCAACGACUGCGAUGACAGCCGUCUCACUCUCGCUGCCGCAAAAGUACACCUGCGGUCGUGGAGUUAGUAGCAUGCAUUU
........................(((((.(((((.((.......)).)))..((((.(((.((((((..........)))))).)))))))..)).)))))..... ( -30.00)
>DroEre_CAF1 5472 107 - 1
UAAUUAAAAAUUCAGCAAAUUACACAUGCAACGACUGCGUUGACAGCCGUCUCACUCUCGCUGCCGUAAGGGUACACCUGCGGUCGUGGAGUUAGUAGCAUGCACUU
........................(((((.(((((.((.......)).)))..((((.(((.((((((.((.....)))))))).)))))))..)).)))))..... ( -32.40)
>DroYak_CAF1 5652 107 - 1
UAAUUAAAAAUUCAGCAAAUUACACAUGCAACGACUGCGAUGACAGCCGUCUCACUCUCGUUGUCGUAAAAGUACACCUGCGGUCGUGGAGUUAGUAGUAUGCAUUU
..............(((.(((((..((...(((((((((..((((((............))))))(((....)))...)))))))))...))..))))).))).... ( -28.00)
>consensus
UAAUUAAAAAUUCAGCAAAUUACACAUGCAACGACUGCGAUGACAGCCGUCUCACUCUCGCUGCCGCAAAAGUACACCUGCGGUCGUGGAGUUAGUAGCAUGCAUUU
........................(((((.(((((.((.......)).)))..((((.(((.((((((..........)))))).)))))))..)).)))))..... (-26.81 = -26.00 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:47 2006