Locus 6559

Sequence ID 3R_DroMel_CAF1
Location 17,270,833 – 17,270,950
Length 117
Max. P 0.998703
window10678 window10679

overview

Window 8

Location 17,270,833 – 17,270,950
Length 117
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 92.22
Mean single sequence MFE -37.32
Consensus MFE -30.46
Energy contribution -31.74
Covariance contribution 1.28
Combinations/Pair 1.09
Mean z-score -2.14
Structure conservation index 0.82
SVM decision value 1.75
SVM RNA-class probability 0.975650
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17270833 117 + 27905053
UCAUCUGGAAGAGAGCAUCCAGAGGAGUGUCUCCGUUUGACUUUCCUGAACCCGUUGGCUGCUCCUCUGAUUUCUUCUUCUGAGCUUCCUCACUUCCCUCUUGGGUGGUUAGUUUUU
(((...((((((((.....((((((((((((..((..(...........)..))..))).))))))))).))))))))..))).....((.(((.(((....))).))).))..... ( -34.60)
>DroSec_CAF1 3482 117 + 1
UCAUCUGGAAGAGGGCAUCGAGAGGAGUGUCUCCGUUUGACUUUCCUGAACCCGUUGGCUGCUCCUCUGAUUUCUUCUUCUGAGCUUCCUCACUGCCCUCUUGGGUGGUUAGUUUUU
......(((((((((.(((.(((((((((((..((..(...........)..))..))).))))))))))).)))))))))(((((.....((..(((....)))..)).))))).. ( -40.80)
>DroSim_CAF1 3532 117 + 1
UCAUUUGGAAGAGGGCAUCGAGAGGAGUGUCUCCGUUUGACUUUCCUGAACCCGUUGGCUGCUCCUCUGAUUUCUUCUUCUGAGCUUCCUCACUGCCCUCUUGGGUGGUUAGUUUUU
...((..((((((((.(((.(((((((((((..((..(...........)..))..))).))))))))))).))))))))..))....((.((..(((....)))..)).))..... ( -42.40)
>DroEre_CAF1 4806 117 + 1
UCAUCUGGAAGAGGGCAUCCAGAGGAGUGUCUCCGUUAGAUUUUGCAGACCCAGUUGGUUGCUCCUCCGACUUCUUCUUCUGAGCUUCCUCACUGGCCUCUUGGGUGGUUAGUUUUU
......(((((((((..((..(((((((((((.((........)).))))((....))..))))))).))..)))))))))(((....)))(((((((.(....).))))))).... ( -36.10)
>DroYak_CAF1 4829 117 + 1
UCAUCUGGAAGAGGGCAUCCAGAGGAGUGUCUCCGUUCGAUUUUCCAGACCCCGUUGGGUGCUCCUCCGACUUCUUCUUUUGAGCAUCCUCACUAGCAUCUUGGGUGGUUAGUUUUU
...(((((((((((....))...((((...))))......))))))))).......((((((((....((.....))....))))))))..((((((((.....)).)))))).... ( -32.70)
>consensus
UCAUCUGGAAGAGGGCAUCCAGAGGAGUGUCUCCGUUUGACUUUCCUGAACCCGUUGGCUGCUCCUCUGAUUUCUUCUUCUGAGCUUCCUCACUGCCCUCUUGGGUGGUUAGUUUUU
......(((((((((.(((.(((((((((((.......))).........((....))..))))))))))).))))))))).......((.(((((((....))))))).))..... (-30.46 = -31.74 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,270,833 – 17,270,950
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 92.22
Mean single sequence MFE -34.12
Consensus MFE -30.26
Energy contribution -30.90
Covariance contribution 0.64
Combinations/Pair 1.15
Mean z-score -2.28
Structure conservation index 0.89
SVM decision value 3.19
SVM RNA-class probability 0.998703
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17270833 117 - 27905053
AAAAACUAACCACCCAAGAGGGAAGUGAGGAAGCUCAGAAGAAGAAAUCAGAGGAGCAGCCAACGGGUUCAGGAAAGUCAAACGGAGACACUCCUCUGGAUGCUCUCUUCCAGAUGA
............(((....)))...((((....))))(((((((...(((((((((.((((....)))).......(((.......))).)))))))))...)).)))))....... ( -33.40)
>DroSec_CAF1 3482 117 - 1
AAAAACUAACCACCCAAGAGGGCAGUGAGGAAGCUCAGAAGAAGAAAUCAGAGGAGCAGCCAACGGGUUCAGGAAAGUCAAACGGAGACACUCCUCUCGAUGCCCUCUUCCAGAUGA
...............((((((((..((((....)))).........((((((((((.((((....)))).......(((.......))).))))))).)))))))))))........ ( -36.10)
>DroSim_CAF1 3532 117 - 1
AAAAACUAACCACCCAAGAGGGCAGUGAGGAAGCUCAGAAGAAGAAAUCAGAGGAGCAGCCAACGGGUUCAGGAAAGUCAAACGGAGACACUCCUCUCGAUGCCCUCUUCCAAAUGA
...............((((((((..((((....)))).........((((((((((.((((....)))).......(((.......))).))))))).)))))))))))........ ( -36.10)
>DroEre_CAF1 4806 117 - 1
AAAAACUAACCACCCAAGAGGCCAGUGAGGAAGCUCAGAAGAAGAAGUCGGAGGAGCAACCAACUGGGUCUGCAAAAUCUAACGGAGACACUCCUCUGGAUGCCCUCUUCCAGAUGA
...............((((((.((.((((....))))..........(((((((((...((....))((((.(..........).)))).))))))))).)).))))))........ ( -32.60)
>DroYak_CAF1 4829 117 - 1
AAAAACUAACCACCCAAGAUGCUAGUGAGGAUGCUCAAAAGAAGAAGUCGGAGGAGCACCCAACGGGGUCUGGAAAAUCGAACGGAGACACUCCUCUGGAUGCCCUCUUCCAGAUGA
.............(((.(((.((..((.((.(((((....((.....))....)))))))))..)).))))))..........((((...))))((((((........))))))... ( -32.40)
>consensus
AAAAACUAACCACCCAAGAGGGCAGUGAGGAAGCUCAGAAGAAGAAAUCAGAGGAGCAGCCAACGGGUUCAGGAAAGUCAAACGGAGACACUCCUCUGGAUGCCCUCUUCCAGAUGA
...............(((((((((.((((....))))..........(((((((((.((((....))))..............(....).))))))))).)))))))))........ (-30.26 = -30.90 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:31 2006