Locus 8321

Sequence ID X_DroMel_CAF1
Location 20,668,240 – 20,668,397
Length 157
Max. P 0.688477
window13669 window13670

overview

Window 9

Location 20,668,240 – 20,668,358
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 93.98
Mean single sequence MFE -17.43
Consensus MFE -15.76
Energy contribution -15.58
Covariance contribution -0.19
Combinations/Pair 1.09
Mean z-score -1.52
Structure conservation index 0.90
SVM decision value 0.28
SVM RNA-class probability 0.665681
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20668240 118 - 22224390
GAAUUUAUGAAAAUAUUUUAUGAAAAUCCUAGUCUUCCC--ACACUUAUUCCACACAUCUGAAUCUGGCUUAGCAUCUACAUACUUGUCAGCAUUUAAUAUGAAAUAAUUUCUUUUUGUU
........((((.(((((((((.........((......--))................((((((((((.................))))).))))).))))))))).))))........ ( -13.53)
>DroSec_CAF1 70124 118 - 1
GAAUUUAUGAAAUUAUUUUAUGAAAAUCCUUGCCUUCCC--ACACUUAUUCCACACAUCCGAAUCUGGCUUAGCAUCUACAUACUUGUCAGCAUUUAAUAUGAAAUAAUUUCUUUUUGUU
........((((((((((((((.........(((.....--.........................)))...((....(((....)))..))......))))))))))))))........ ( -15.61)
>DroEre_CAF1 65402 118 - 1
GAAUUUAUGAAAUUAUUUCAUGAAAAUCCCAGCCUUCGC--ACACUAAUUCCACACAUCUGAAUCUGGCUUAGCAUCUACAUACUUGUCAGCGUUUAAUAUGAAAUAAUUUCUUUCUGUU
........((((((((((((((.........((....))--..................((((((((((.................))))).))))).))))))))))))))........ ( -20.63)
>DroYak_CAF1 66820 120 - 1
GAAUUUAUGAAAUUAUUUCAUGAAAAUCCCUGCCUUCCCACACACUUAUUGCACACAUCUGAAUCUGGCUUAGCAUCUACAUACUUGUCAGCAUUUAAUAUGAAAUAAUUUCUUUCUGUU
........((((((((((((((........(((.................)))......((((((((((.................))))).))))).))))))))))))))........ ( -19.96)
>consensus
GAAUUUAUGAAAUUAUUUCAUGAAAAUCCCAGCCUUCCC__ACACUUAUUCCACACAUCUGAAUCUGGCUUAGCAUCUACAUACUUGUCAGCAUUUAAUAUGAAAUAAUUUCUUUCUGUU
........((((((((((((((.........(((................................)))...((....(((....)))..))......))))))))))))))........ (-15.76 = -15.58 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 20,668,280 – 20,668,397
Length 117
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 85.03
Mean single sequence MFE -24.67
Consensus MFE -19.79
Energy contribution -20.60
Covariance contribution 0.81
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.80
SVM decision value 0.32
SVM RNA-class probability 0.688477
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20668280 117 - 22224390
AAUAUACUUGAAUCGAGGCAAAGCAUAGUGAAGCGUUGGGAAUUUAUGAAAAUAUUUUAUGAAAAUCCUAGUCUUCCC--ACACUUAUUCCACACAUCUGAAUCUGGCUUAGCAUCUAC
..............((.((.((((...((((((.((.(((((((((((((.....))))))))..........)))))--)).)))....))).((........)))))).)).))... ( -19.40)
>DroSec_CAF1 70164 117 - 1
AAUAUACUCGAAUCGAGGCAAAGCGAAGUGAAGCGUUGGGAAUUUAUGAAAUUAUUUUAUGAAAAUCCUUGCCUUCCC--ACACUUAUUCCACACAUCCGAAUCUGGCUUAGCAUCUAC
......((((...))))((.((((...(.((((.((.((((.((((((((.....))))))))..)))).)))))).)--...(..((((.........))))..))))).))...... ( -23.50)
>DroEre_CAF1 65442 117 - 1
AAUAUACUCGAAUCGAGGCGAAGCAUAGUGAAGCGUUGGGAAUUUAUGAAAUUAUUUCAUGAAAAUCCCAGCCUUCGC--ACACUAAUUCCACACAUCUGAAUCUGGCUUAGCAUCUAC
......((((...))))((.((((...((((((.(((((((.((((((((.....))))))))..)))))))))))))--...(..((((.........))))..))))).))...... ( -35.80)
>DroYak_CAF1 66860 99 - 1
A--------------------AGCAUAGUGAAGCGUUGGGAAUUUAUGAAAUUAUUUCAUGAAAAUCCCUGCCUUCCCACACACUUAUUGCACACAUCUGAAUCUGGCUUAGCAUCUAC
.--------------------.((...(.((((.((.((((.((((((((.....))))))))..)))).)))))).)...........((.((.((....)).))))...))...... ( -20.00)
>consensus
AAUAUACUCGAAUCGAGGCAAAGCAUAGUGAAGCGUUGGGAAUUUAUGAAAUUAUUUCAUGAAAAUCCCAGCCUUCCC__ACACUUAUUCCACACAUCUGAAUCUGGCUUAGCAUCUAC
.................((.((((.....((((.(((((((.((((((((.....))))))))..))))))))))).......(..((((.........))))..))))).))...... (-19.79 = -20.60 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:10 2006