Locus 9144

Sequence ID 3R_DroMel_CAF1
Location 24,395,823 – 24,395,921
Length 98
Max. P 0.597703
window14631 window14632

overview

Window 1

Location 24,395,823 – 24,395,921
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 79.66
Mean single sequence MFE -20.09
Consensus MFE -11.44
Energy contribution -13.47
Covariance contribution 2.03
Combinations/Pair 1.19
Mean z-score -1.78
Structure conservation index 0.57
SVM decision value 0.13
SVM RNA-class probability 0.597703
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24395823 98 + 27905053
UCAUUCAUAGAGAGCUCCAGUUCCAGGGCUCCAGAGCUACCCCAAUGCACAUAGCCCCACCAACGAUGUGUACCCACUUCGAUGCCAGCUACCUAUUC
......((((..((((.........(((((...(.((.........)).)..)))))...((.(((.(((....))).))).))..))))..)))).. ( -20.30)
>DroSec_CAF1 217926 98 + 1
UCAUUCAUAGAGAGCUCCAGUUCCAGGGCUCCAGAGCUACCCCAAUGCACAUAGCCCCACCAACGAUGUGUACUCACUUCGAUGCCAGCUCCCUAUUC
......((((.(((((.........(((((...(.((.........)).)..)))))...((.(((.(((....))).))).))..))))).)))).. ( -23.70)
>DroSim_CAF1 226602 98 + 1
UCAUUCAUAGAGAGCUCCAGUUCCAGGGCUCCAGAGCUACCCCAAUGCACAUAGCCCCACCAACGAUGUGUACCCACUUCGAUGCCAGCUCCCUAUUC
......((((.(((((.........(((((...(.((.........)).)..)))))...((.(((.(((....))).))).))..))))).)))).. ( -23.20)
>DroEre_CAF1 232441 98 + 1
UCAUUCAUAGAGAGCUCCAGUUCCAGGGUUCCACAGCUCCCCCAAUGCACAUAGCCCCACCAUCGAUGUGUACCCACUUCGAUUCCAGCUCCCUACUC
.......(((.(((((.........(((((.....((.........))....)))))....(((((.(((....))).)))))...))))).)))... ( -21.60)
>DroYak_CAF1 226229 98 + 1
UCAUUCAUAGAGAGCUCCAGUUCCAGGGUGCCACAGCUCCCCCAGUGCACAUAGCCCCACCAUCGAUGUGUACCCACUUCGAAUCCAGCUCCCUAUUC
......((((.(((((...((((..(((.((....)).)))...((((((((.............)))))))).......))))..))))).)))).. ( -26.32)
>DroAna_CAF1 221356 78 + 1
UCAUUCAUAGAAAGCCGC---CCCC--UUGCCACAG----CCCAGUGAACAUAAACAUA--------UAGUAACCCUUCCGC---UUGUGCCACACAC
...........((((.((---....--..))(((..----....)))............--------.............))---))(((...))).. (  -5.40)
>consensus
UCAUUCAUAGAGAGCUCCAGUUCCAGGGCUCCACAGCUACCCCAAUGCACAUAGCCCCACCAACGAUGUGUACCCACUUCGAUGCCAGCUCCCUAUUC
.......(((.(((((.........(((((.....((.........))....)))))......(((.(((....))).))).....))))).)))... (-11.44 = -13.47 +   2.03)

alignment

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secondary structure

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dotplot

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Window 2

Location 24,395,823 – 24,395,921
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 79.66
Mean single sequence MFE -30.75
Consensus MFE -19.04
Energy contribution -20.85
Covariance contribution 1.81
Combinations/Pair 1.25
Mean z-score -1.48
Structure conservation index 0.62
SVM decision value 0.04
SVM RNA-class probability 0.556121
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24395823 98 - 27905053
GAAUAGGUAGCUGGCAUCGAAGUGGGUACACAUCGUUGGUGGGGCUAUGUGCAUUGGGGUAGCUCUGGAGCCCUGGAACUGGAGCUCUCUAUGAAUGA
...((.((((((.((..(((.(((....))).)))...)).).))))).))(((.((((.(((((..(..(....)..)..))))))))))))..... ( -32.80)
>DroSec_CAF1 217926 98 - 1
GAAUAGGGAGCUGGCAUCGAAGUGAGUACACAUCGUUGGUGGGGCUAUGUGCAUUGGGGUAGCUCUGGAGCCCUGGAACUGGAGCUCUCUAUGAAUGA
..((((((((((..((.(((.(((....))).))).))..((((((..(.((.........)).)...))))))........))))))))))...... ( -32.90)
>DroSim_CAF1 226602 98 - 1
GAAUAGGGAGCUGGCAUCGAAGUGGGUACACAUCGUUGGUGGGGCUAUGUGCAUUGGGGUAGCUCUGGAGCCCUGGAACUGGAGCUCUCUAUGAAUGA
..((((((((((..((.(((.(((....))).))).))..((((((..(.((.........)).)...))))))........))))))))))...... ( -34.20)
>DroEre_CAF1 232441 98 - 1
GAGUAGGGAGCUGGAAUCGAAGUGGGUACACAUCGAUGGUGGGGCUAUGUGCAUUGGGGGAGCUGUGGAACCCUGGAACUGGAGCUCUCUAUGAAUGA
..((((((((((...(((((.(((....))).)))))(((...((.....)).((.((((..(....)..)))).)))))..))))))))))...... ( -32.90)
>DroYak_CAF1 226229 98 - 1
GAAUAGGGAGCUGGAUUCGAAGUGGGUACACAUCGAUGGUGGGGCUAUGUGCACUGGGGGAGCUGUGGCACCCUGGAACUGGAGCUCUCUAUGAAUGA
..((((((((((....((((.(((....))).)))).(((...((.....)).(..(((..((....)).)))..).)))..))))))))))...... ( -35.40)
>DroAna_CAF1 221356 78 - 1
GUGUGUGGCACAA---GCGGAAGGGUUACUA--------UAUGUUUAUGUUCACUGGG----CUGUGGCAA--GGGG---GCGGCUUUCUAUGAAUGA
(((((((((....---.(....).))))).)--------)))......(((((.((((----..((.((..--....---)).))..))))))))).. ( -16.30)
>consensus
GAAUAGGGAGCUGGCAUCGAAGUGGGUACACAUCGUUGGUGGGGCUAUGUGCAUUGGGGUAGCUCUGGAACCCUGGAACUGGAGCUCUCUAUGAAUGA
..((((((((((.....(((.(((....))).))).....((((((....((.........)).....))))))........))))))))))...... (-19.04 = -20.85 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:35 2006