Locus 4990

Sequence ID 2L_DroMel_CAF1
Location 14,373,900 – 14,374,014
Length 114
Max. P 0.857847
window7926 window7927

overview

Window 6

Location 14,373,900 – 14,374,014
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.30
Mean single sequence MFE -29.14
Consensus MFE -17.86
Energy contribution -19.36
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.59
Structure conservation index 0.61
SVM decision value 0.82
SVM RNA-class probability 0.857847
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14373900 114 + 22407834
GAGCAGACAACCACUUAGCCUCAAUUGGCCAGCUAUCGAUGUAAAGUUAUUUGCAUGGCGACUUCAAUCCC-----GAUGGCUAACACCCAACCACC-CAAAUGGCUAUAUGCUAAUUAU
.((((.....(((....(((......))).(((((((.(((((((....)))))))((.((......))))-----)))))))..............-....))).....))))...... ( -27.70)
>DroSec_CAF1 22024 109 + 1
-----GACAACCACUUAGCCUCAAUUGGCCAGCUAUCGAUGUAAAGUUAUUUGCAUGGCGACUUCAGGCCC-----GAUGGCUAUCACCCAACCACC-CAAAUGGCUAUAUGCUAAUUAU
-----............(((......))).(((((((((((((((....)))))))(((........))))-----)))))))..............-....((((.....))))..... ( -27.70)
>DroSim_CAF1 24125 110 + 1
-----GACAACCACUUAGCCUCAAUUGGCCAGCUAUCGAUGUAAAGUUAUUUGCAUGGCGACUUCAGGCCC-----GAUGGCUAUCACCCAACCACCCCAAAUGGCUAUAUGCUAAUUAU
-----............(((......))).(((((((((((((((....)))))))(((........))))-----)))))))...................((((.....))))..... ( -27.70)
>DroEre_CAF1 22801 97 + 1
GUAUAGACAGCCACUUAGCCCCAAUUGGCCAGCUAUCGAUGUAAAGUUAUUUGCAUU----------------------GGCUAACACCCCACCACC-CAAAUGGCUAUAUGCUAAUUAU
(((((...(((((....(((......))).(((...(((((((((....))))))))----------------------))))..............-....))))).)))))....... ( -23.30)
>DroYak_CAF1 23582 119 + 1
GAAUAGACAGCCACUUAGCCUCAAUUGGCCAGCUACCGAUGUAAAGUUAUUUGCAUUGCGAUUUCAAGCUGGCUAAGAUGGCUAACACCCAGCCACC-CAAAUGGCAAUAUGCUAAUUAU
........(((...((((((....((((((((((..(((((((((....))))))))).(....).))))))))))...))))))......((((..-....)))).....)))...... ( -39.30)
>consensus
G___AGACAACCACUUAGCCUCAAUUGGCCAGCUAUCGAUGUAAAGUUAUUUGCAUGGCGACUUCAAGCCC_____GAUGGCUAACACCCAACCACC_CAAAUGGCUAUAUGCUAAUUAU
.................(((......))).(((((((.(((((((....)))))))(((........)))......)))))))...................((((.....))))..... (-17.86 = -19.36 +   1.50)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,373,900 – 14,374,014
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.30
Mean single sequence MFE -34.47
Consensus MFE -24.50
Energy contribution -24.34
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -1.98
Structure conservation index 0.71
SVM decision value 0.58
SVM RNA-class probability 0.787752
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14373900 114 - 22407834
AUAAUUAGCAUAUAGCCAUUUG-GGUGGUUGGGUGUUAGCCAUC-----GGGAUUGAAGUCGCCAUGCAAAUAACUUUACAUCGAUAGCUGGCCAAUUGAGGCUAAGUGGUUGUCUGCUC
......((((.(((((((((((-(.(.(((((...(((((.(((-----((...((((((.............))))))..))))).))))))))))...).)))))))))))).)))). ( -36.22)
>DroSec_CAF1 22024 109 - 1
AUAAUUAGCAUAUAGCCAUUUG-GGUGGUUGGGUGAUAGCCAUC-----GGGCCUGAAGUCGCCAUGCAAAUAACUUUACAUCGAUAGCUGGCCAAUUGAGGCUAAGUGGUUGUC-----
.......((...(((((((...-.))))))).))(((((((((.-----.(((((.((...((((.((...................))))))...)).)))))..)))))))))----- ( -36.51)
>DroSim_CAF1 24125 110 - 1
AUAAUUAGCAUAUAGCCAUUUGGGGUGGUUGGGUGAUAGCCAUC-----GGGCCUGAAGUCGCCAUGCAAAUAACUUUACAUCGAUAGCUGGCCAAUUGAGGCUAAGUGGUUGUC-----
.......((...(((((((.....))))))).))(((((((((.-----.(((((.((...((((.((...................))))))...)).)))))..)))))))))----- ( -36.51)
>DroEre_CAF1 22801 97 - 1
AUAAUUAGCAUAUAGCCAUUUG-GGUGGUGGGGUGUUAGCC----------------------AAUGCAAAUAACUUUACAUCGAUAGCUGGCCAAUUGGGGCUAAGUGGCUGUCUAUAC
.....((((((...(((((...-.)))))...))))))((.----------------------...))...............(((((((((((......))))....)))))))..... ( -26.10)
>DroYak_CAF1 23582 119 - 1
AUAAUUAGCAUAUUGCCAUUUG-GGUGGCUGGGUGUUAGCCAUCUUAGCCAGCUUGAAAUCGCAAUGCAAAUAACUUUACAUCGGUAGCUGGCCAAUUGAGGCUAAGUGGCUGUCUAUUC
.....((((((...(((((...-.)))))...))))))((((.(((((((.(((((......))).))...............(((.....)))......)))))))))))......... ( -37.00)
>consensus
AUAAUUAGCAUAUAGCCAUUUG_GGUGGUUGGGUGUUAGCCAUC_____GGGCCUGAAGUCGCCAUGCAAAUAACUUUACAUCGAUAGCUGGCCAAUUGAGGCUAAGUGGUUGUCU___C
.......((((.(((((((.....)))))))(((....))).......................))))...............(((((((((((......))))....)))))))..... (-24.50 = -24.34 +  -0.16)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:58 2006