Locus 1245

Sequence ID 2L_DroMel_CAF1
Location 3,296,383 – 3,296,516
Length 133
Max. P 0.652921
window2037 window2038

overview

Window 7

Location 3,296,383 – 3,296,485
Length 102
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 81.70
Mean single sequence MFE -30.34
Consensus MFE -19.44
Energy contribution -19.33
Covariance contribution -0.11
Combinations/Pair 1.21
Mean z-score -1.61
Structure conservation index 0.64
SVM decision value 0.03
SVM RNA-class probability 0.547624
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3296383 102 - 22407834
ACCAACUUAUGGCAGCGGGACUGAUCACACCGGUGACAGCACCUGUGAUGUCCACAUCCG---UGCCAGCGCAUUUCAUGCAGGGCAACACCUUCAAGCCACUCA
.........((((....((((..((((((..((((....)))))))))))))).......---((((...((((...))))..))))..........)))).... ( -31.10)
>DroPse_CAF1 6054 105 - 1
ACCAACUAAUGGCAGCAGGACUGAUCACACCAGUCACAGCUCCUGUAAUGUCGACCUCUGGCCUUCCCGCGCACUACCACCAGUCGAGCAGCUUUAAGCCCCUGA
..........(((.(((((((((...((....))..))).))))))..(((((((...(((...............)))...))))).)).......)))..... ( -22.76)
>DroSec_CAF1 5144 102 - 1
ACCAUCUUAUGGCAGCGGGACUGAUCACACCGGUGACAGCUCCUGUAAUGUCCACAUCAG---UGACAGCGCAUUUCAUGCAGUGCAACACCUUCAAGCCACUCA
.........((((.(((((((((.((((....))))))).))))))..((((.((....)---)))))..(((((......)))))...........)))).... ( -29.60)
>DroEre_CAF1 13595 102 - 1
ACCAACUUAUGGCGGCGGGACUGAUCACACCCGUGACAGCUCCCGUGAUGUCCACAUCCG---CGCCAGGGCAUUUCCUGCAGGGCAGCACCUUUAAGCCACUCA
.........((((.(((((((((.((((....))))))).))))))((((....)))).(---((((...(((.....)))..))).))........)))).... ( -37.60)
>DroYak_CAF1 5248 102 - 1
ACCAACUUAUGGCAGCGGGACUGAUGACACCCGUCACAGCUCCCGUGAUGUCCGCAUCCG---UGCCACCGCAUUUCACGCAGGGCAGCACAUUCAAGCCACUCA
.........((((.(((((((((.((((....))))))).))))))((((....)))).(---(((..((((.......)).))...))))......)))).... ( -36.40)
>DroPer_CAF1 6027 105 - 1
ACCAGCUAAUGGCAGCAGGACUGAUCACACCAGUCACAGCUCCUGUAAUGUCGACCUCUGGCCUUCCCGCGCACUACCACCAGUCGAGCAGCUUUAAGCCCCUGA
....(((...(((.(((((((((...((....))..))).))))))..(((((((...(((...............)))...))))).)))))...)))...... ( -24.56)
>consensus
ACCAACUUAUGGCAGCGGGACUGAUCACACCAGUCACAGCUCCUGUAAUGUCCACAUCCG___UGCCAGCGCAUUUCAUGCAGGGCAGCACCUUCAAGCCACUCA
..........(((.(((((((((.((((....))))))).))))))...................................(((......)))....)))..... (-19.44 = -19.33 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 3,296,416 – 3,296,516
Length 100
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 82.04
Mean single sequence MFE -28.48
Consensus MFE -20.42
Energy contribution -20.90
Covariance contribution 0.48
Combinations/Pair 1.18
Mean z-score -1.62
Structure conservation index 0.72
SVM decision value 0.25
SVM RNA-class probability 0.652921
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3296416 100 - 22407834
GCUUCAGUGGCUAACCAAA-AAUUCUUUGUAGACCAACUUAUGGCAGCGGGACUGAUCACACCGGUGACAGCACCUGUGAUGUCCACAUCCG---UGCCAGCGC
((.....((((((..((((-.....))))))).))).....(((((.((((..((..(((((.((((....)))).))).))..))..))))---))))))).. ( -29.90)
>DroPse_CAF1 6087 104 - 1
UCUUCACUCACUCUCUGCUCUGUAUGUUCCAGACCAACUAAUGGCAGCAGGACUGAUCACACCAGUCACAGCUCCUGUAAUGUCGACCUCUGGCCUUCCCGCGC
................((((((.......))))(((.....((((((((((((((...((....))..))).))))))..))))).....))).......)).. ( -20.00)
>DroSec_CAF1 5177 100 - 1
ACUUCAAUGGCUAAUCAAU-AAUACUUUGUAGACCAUCUUAUGGCAGCGGGACUGAUCACACCGGUGACAGCUCCUGUAAUGUCCACAUCAG---UGACAGCGC
......(((((((..(((.-......)))))).))))......((.(((((((((.((((....))))))).))))))..((((.((....)---))))))).. ( -26.10)
>DroSim_CAF1 5193 100 - 1
ACUUCAAUGGCUAACCAAU-AAUACUUUGUAGACCAACUUAUGGCAGCGGGACUGAUCACACCGGUGACAGCUCCUGUGAUGUCCACAUCCG---UGCCAGCGC
.......((((((..(((.-......)))))).))).....((((((((((((((.((((....))))))).))))))((((....))))..---))))).... ( -29.70)
>DroEre_CAF1 13628 100 - 1
AGUACAAUGACUAACCAAU-UAUACUUGGUAGACCAACUUAUGGCGGCGGGACUGAUCACACCCGUGACAGCUCCCGUGAUGUCCACAUCCG---CGCCAGGGC
..............((...-.....((((....))))....((((((((((((((.((((....))))))).))))))((((....))))..---))))))).. ( -34.60)
>DroYak_CAF1 5281 100 - 1
AAAUCAAUGACUAACCAAU-UCUACUUUGUAGACCAACUUAUGGCAGCGGGACUGAUGACACCCGUCACAGCUCCCGUGAUGUCCGCAUCCG---UGCCACCGC
...................-(((((...)))))........((((((((((((((.((((....))))))).))))))((((....))))..---))))).... ( -30.60)
>consensus
ACUUCAAUGACUAACCAAU_AAUACUUUGUAGACCAACUUAUGGCAGCGGGACUGAUCACACCGGUGACAGCUCCUGUGAUGUCCACAUCCG___UGCCAGCGC
.........................................((((((((((((((.((((....))))))).))))))((((....)))).....))))).... (-20.42 = -20.90 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:37 2006