Locus 3022

Sequence ID X_DroMel_CAF1
Location 8,074,716 – 8,074,854
Length 138
Max. P 0.983053
window4948 window4949

overview

Window 8

Location 8,074,716 – 8,074,817
Length 101
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 76.06
Mean single sequence MFE -18.46
Consensus MFE -12.34
Energy contribution -13.28
Covariance contribution 0.94
Combinations/Pair 1.14
Mean z-score -1.54
Structure conservation index 0.67
SVM decision value 0.06
SVM RNA-class probability 0.565685
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8074716 101 - 22224390
UUUUUUUUUUCAUUUCCCCCCCGCACAGCUCAAUGGCUGUCAAACUGUAUGGCACUAGUCGCUUUGCAGUUUUCAAUUAAUUACAUUUAGCAAAUGUGUUU---
......................(.((((((....)))))))((((((((.(((.......))).)))))))).........((((((.....))))))...--- ( -20.20)
>DroSec_CAF1 56512 101 - 1
UUUUUCUUCACCUUCCCCCCACUCACAGCUCAAUGGCUGUCAAACUGUAUGGCACUAGUCGCUUUCCAGUUUUCAAUUAAUUACAUUUAGCAAAUGUGUUU---
........................((((((....)))))).((((((...(((.......)))...)))))).........((((((.....))))))...--- ( -15.70)
>DroEre_CAF1 43767 86 - 1
UUAAU--CCU-ACCA------------GCUCAAUGGCCGCCAAACUGUAUGACACCAGUCGCUUUGCAGUUUUCAAUUAAUUGCAUUUGGCACAUGUGUUU---
.....--...-.(((------------......)))..((((((......(((....)))....(((((((.......)))))))))))))..........--- ( -18.20)
>DroYak_CAF1 51072 102 - 1
UUUACAGCCA-ACCACCCACCCACCCCGUCUAAUGGCUGUCAAACUGUAGGGCACUAGUCGCU-UGCAGUUUUCAAUUAAUUACAUUUAGCAAAUGUGUUUUUU
...(((((((-......................))))))).((((((((((.(.......)))-)))))))).........((((((.....))))))...... ( -19.75)
>consensus
UUUAU_UCCA_ACCACCCCCCC_CACAGCUCAAUGGCUGUCAAACUGUAUGGCACUAGUCGCUUUGCAGUUUUCAAUUAAUUACAUUUAGCAAAUGUGUUU___
.........................(((((....)))))..((((((((.(((.......))).)))))))).........((((((.....))))))...... (-12.34 = -13.28 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 8,074,742 – 8,074,854
Length 112
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 76.27
Mean single sequence MFE -23.76
Consensus MFE -18.14
Energy contribution -18.83
Covariance contribution 0.69
Combinations/Pair 1.12
Mean z-score -2.05
Structure conservation index 0.76
SVM decision value 1.93
SVM RNA-class probability 0.983053
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8074742 112 - 22224390
ACCCCACUCGCUUUUUACACUUAAUAGUGUGUGCUGUUUUUUUUUUUCAUUUCCCCCCCGCACAGCUCAAUGGCUGUCAAACUGUAUGGCACUAGUCGCUUUGCAGUUUUCA
.........((....((((((....)))))).)).........................(.((((((....)))))))((((((((.(((.......))).))))))))... ( -25.00)
>DroSec_CAF1 56538 112 - 1
ACCCCUCUCGCUUUUUACACUUAAUAGUGUGUGCUGUUUUUUCUUCACCUUCCCCCCACUCACAGCUCAAUGGCUGUCAAACUGUAUGGCACUAGUCGCUUUCCAGUUUUCA
.........((....((((((....)))))).))...........................((((((....)))))).((((((...(((.......)))...))))))... ( -20.50)
>DroEre_CAF1 43793 95 - 1
-AG-CUCUCGCUUUUUACACUCAAUAGUGUGUGCUGUUUAAU--CCU-ACCA------------GCUCAAUGGCCGCCAAACUGUAUGACACCAGUCGCUUUGCAGUUUUCA
-.(-(....((....((((((....)))))).))........--...-.(((------------......)))..)).((((((((((((....))))...))))))))... ( -18.90)
>DroYak_CAF1 51101 109 - 1
-CGCCUCUCGCUUUUCACACUCAACAGUGUGUGCAGUUUUACAGCCA-ACCACCCACCCACCCCGUCUAAUGGCUGUCAAACUGUAGGGCACUAGUCGCU-UGCAGUUUUCA
-.((((.........((((((....))))))((((((((.(((((((-......................))))))).))))))))))))..........-........... ( -30.65)
>consensus
_CCCCUCUCGCUUUUUACACUCAAUAGUGUGUGCUGUUUUAU_UCCA_ACCACCCCCCC_CACAGCUCAAUGGCUGUCAAACUGUAUGGCACUAGUCGCUUUGCAGUUUUCA
.........((....((((((....)))))).))............................(((((....)))))..((((((((.(((.......))).))))))))... (-18.14 = -18.83 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:09 2006