Locus 8026

Sequence ID 3R_DroMel_CAF1
Location 21,550,971 – 21,551,113
Length 142
Max. P 0.676491
window12918 window12919

overview

Window 8

Location 21,550,971 – 21,551,077
Length 106
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 82.34
Mean single sequence MFE -23.87
Consensus MFE -18.53
Energy contribution -18.45
Covariance contribution -0.08
Combinations/Pair 1.24
Mean z-score -1.25
Structure conservation index 0.78
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21550971 106 + 27905053
AUUAAUAGCCCGAAAGGUUGUCGGCGAUUGUGCCUAACCCACCC-CCGUCG-ACCAUCCGAUUUGAUUACAACUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGA
((((((((.((....))..(((((((...(((.......)))..-.)))))-))..........................))))))))..(((((((....))))))) ( -29.30)
>DroSec_CAF1 48505 107 + 1
AUUAAUGGCCCGAAAGGUUGUCGGCGAUUGUGCCUAAACUACCC-CCACCACACCCUCUGAUUUGAUUACGCCUCCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGA
((((((((.((....))(((..((((..((((............-....))))...((......))...))))..)))..))))))))..(((((((....))))))) ( -26.39)
>DroSim_CAF1 42865 107 + 1
AUUAAUGGCCCGAAAGGUUGUCGGCGAUUGUGCCUAAACUACCC-CCACCACACCCUCUGAUUUGAUUACGCCUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGA
((((((((.((....))((((.((((..((((............-....))))...((......))...)))).))))..))))))))..(((((((....))))))) ( -27.99)
>DroEre_CAF1 38652 99 + 1
AUUAAUGGCCCAAAAGGUUGUCGGCGAUUGUGCCUAAGCC-------CC--UUCCCCCUGAUCUUAUUACGCCUGCAAACCUAUUAAUAGUCAGUGAUUAAUCACUGA
((((((((.((....))((((.((((.....((....)).-------..--.((.....))........)))).))))..))))))))..(((((((....))))))) ( -21.00)
>DroYak_CAF1 42140 106 + 1
AUUAAUGGCCCGAAAGGUUGUCGGCGAUUGUGCCUAACCCAAACUCCAC--CCCUCUCUGAUUUGAUUACGCCUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACUGA
((((((((.((....))((((.((((...(((..............)))--.....((......))...)))).))))..))))))))..(((((((....))))))) ( -24.44)
>DroAna_CAF1 30861 91 + 1
AUUAAUAGCUCGAAAGGUUGUCGAUGUUUGUUCCUU----------------GCCCUCUGAUUUGAUUACGCGUGCAAUCCUAUUAAUAGU-AGUGAUUAAUCAUUGA
....(((((.(....))))))(((((.(((.((.((----------------((....((((..((((........))))..))))...))-)).)).))).))))). ( -14.10)
>consensus
AUUAAUGGCCCGAAAGGUUGUCGGCGAUUGUGCCUAAACCACCC_CCAC__CACCCUCUGAUUUGAUUACGCCUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGA
((((((((.((....))((((.((((...........................................)))).))))..))))))))..(((((((....))))))) (-18.53 = -18.45 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,551,003 – 21,551,113
Length 110
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 80.93
Mean single sequence MFE -20.10
Consensus MFE -13.02
Energy contribution -13.00
Covariance contribution -0.02
Combinations/Pair 1.33
Mean z-score -1.70
Structure conservation index 0.65
SVM decision value 0.30
SVM RNA-class probability 0.676491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21551003 110 + 27905053
CCUAACCCACCC-CCGUCG-ACCAUCCGAUUUGAUUACAACUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGAUUCGACCAUGGUCAACUACACCGCAAUAACAGUAUG
............-..((.(-(((((.(((...((((.(....).)))).........((((((((....)))))))))))...)))))).)).................... ( -21.90)
>DroSec_CAF1 48537 111 + 1
CCUAAACUACCC-CCACCACACCCUCUGAUUUGAUUACGCCUCCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGAUUCGACCAUGGUCAACUACACCGCAAUAACUGUGUG
............-....(((((....((((..((((........))))..))))..(((((((((....))))))))).(((....)))..................))))) ( -21.60)
>DroSim_CAF1 42897 111 + 1
CCUAAACUACCC-CCACCACACCCUCUGAUUUGAUUACGCCUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGAUUCGACCAUGGUCAACUACACCGCAAUAACAGUGUG
............-....(((((..((......)).......(((............(((((((((....))))))))).(((....))).........)))......))))) ( -23.00)
>DroEre_CAF1 38684 103 + 1
CCUAAGCC-------CC--UUCCCCCUGAUCUUAUUACGCCUGCAAACCUAUUAAUAGUCAGUGAUUAAUCACUGAGUCGACCAUGGUCAACUACACCGCAAUAACAGCAUG
........-------..--......................(((..............(((((((....)))))))((.(((....))).))......)))........... ( -16.20)
>DroYak_CAF1 42172 110 + 1
CCUAACCCAAACUCCAC--CCCUCUCUGAUUUGAUUACGCCUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACUGAUUCGACCAUGGUCAACUACACCGCAAUAACAGCAUG
.................--......................(((............(((((((((....))))))))).(((....))).........)))........... ( -16.30)
>DroAna_CAF1 30893 95 + 1
CCUU----------------GCCCUCUGAUUUGAUUACGCGUGCAAUCCUAUUAAUAGU-AGUGAUUAAUCAUUGAUUGGCUUAUGGUCAACUACACGCUAAUAACAGUGGA
....----------------..((.(((.....((((.(((((.((((((((.....))-)).)))).........(((((.....)))))...)))))))))..))).)). ( -21.60)
>consensus
CCUAAACCACCC_CCAC__CACCCUCUGAUUUGAUUACGCCUGCAAUCCUAUUAAUAGUCGGUGAUUAAUCACCGAUUCGACCAUGGUCAACUACACCGCAAUAACAGUAUG
.........................................(((............(((((((((....))))))))).(((....))).........)))........... (-13.02 = -13.00 +  -0.02)

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 13:00:42 2006