Locus 2098

Sequence ID 3L_DroMel_CAF1
Location 5,761,502 – 5,761,699
Length 197
Max. P 0.543075
window3264 window3265

overview

Window 4

Location 5,761,502 – 5,761,600
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 84.97
Mean single sequence MFE -27.53
Consensus MFE -20.87
Energy contribution -21.53
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.76
SVM decision value 0.00
SVM RNA-class probability 0.534015
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5761502 98 + 23771897
CCAGUGAACAUUUGGACAUUUGGACAUUCGAACAUUGGGACAUCUGAGUAGCGUUGGCAUUUCGGCAUUUCCCAACCCGAAGGGCGUAGGUCCACAAA
((((.......)))).....(((((...((....((((((.(((((((..((....))..))))).)).)))))).((....))))...))))).... ( -28.20)
>DroSec_CAF1 4048 81 + 1
--------AAUGUGGACAUUCG--------AACAUUUGGACAUCUGAGUAGCGUUGGCAUUUCGGCAUUUC-CAACCCGAAGGGCGUAGGUCCACAAA
--------..(((((((...((--------.....(((((.(((((((..((....))..))))).)).))-))).((....))))...))))))).. ( -27.20)
>DroSim_CAF1 3846 90 + 1
--------AAUGUGGACAUUCGAACAUUCGAACAUUUGGACAUCUGAGUAGCGUUGGCAUUUCGGCAUUUCCCAACCCGAAGGGCGUAGGUCCACAAA
--------..(((((((.(((((....))))).....(((.(((((((..((....))..))))).)).)))..((((....)).))..))))))).. ( -27.20)
>consensus
________AAUGUGGACAUUCG_ACAUUCGAACAUUUGGACAUCUGAGUAGCGUUGGCAUUUCGGCAUUUCCCAACCCGAAGGGCGUAGGUCCACAAA
..........(((((((....................(((.(((((((..((....))..))))).)).)))..((((....)).))..))))))).. (-20.87 = -21.53 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 5,761,600 – 5,761,699
Length 99
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 86.03
Mean single sequence MFE -21.32
Consensus MFE -15.89
Energy contribution -16.45
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -1.44
Structure conservation index 0.75
SVM decision value 0.02
SVM RNA-class probability 0.543075
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5761600 99 - 23771897
CAUCCAUCGAUUCAUCCAAUCAACUCGCCCACGGGCGAACGGAAACUAAUCAUUAUAUUAGCAUGCUGAUGAUCGCAGCUCAAUGAAUCCCCCCAUGCA
........(((((((....((...(((((....)))))...))................(((.(((........))))))..))))))).......... ( -21.50)
>DroSec_CAF1 4129 99 - 1
AAUCCAUCGGUUCAUCCAAUCAACUCGCCCACGGGCGAACGGAAACUAAUCAUUGUAUUAGCAUGCUGAUGAUCGCAGCUCAAUGAAUCCCCACAUGCA
..(((...((.....)).......(((((....)))))..)))......((((((....(((.(((........))))))))))))............. ( -24.30)
>DroSim_CAF1 3936 99 - 1
CAGCCAUCGAUUCAUCCAAUCAACUCGCCCACGGGCGAACGGAAACUAAUCAUUGUAUUAGCAUGCUGAUGAUCGCAGCUCAAUGAAUCUUACUAUGCA
........(((((((.((((....(((((....)))))..(....).....))))....(((.(((........))))))..))))))).......... ( -22.50)
>DroEre_CAF1 4171 88 - 1
----------UCCAUCCAAUCAACUCGCCCACGGGCUAGGGUAAACUAAUCAUUGUAUUAGCAUGCUGAUGACCGCAACUCGAUGAAUGCC-CCAUGCA
----------................((....(((((((......))).((((((((((((....)))))).........))))))..)))-)...)). ( -17.00)
>consensus
CAUCCAUCGAUUCAUCCAAUCAACUCGCCCACGGGCGAACGGAAACUAAUCAUUGUAUUAGCAUGCUGAUGAUCGCAGCUCAAUGAAUCCCCCCAUGCA
........................(((((....)))))..(....)...((((((....(((.(((........))))))))))))............. (-15.89 = -16.45 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:18 2006