Locus 3206

Sequence ID 3R_DroMel_CAF1
Location 8,531,395 – 8,531,509
Length 114
Max. P 0.898247
window5191 window5192

overview

Window 1

Location 8,531,395 – 8,531,509
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 82.92
Mean single sequence MFE -34.29
Consensus MFE -24.53
Energy contribution -26.37
Covariance contribution 1.84
Combinations/Pair 1.28
Mean z-score -3.17
Structure conservation index 0.72
SVM decision value 1.00
SVM RNA-class probability 0.898247
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8531395 114 + 27905053
CACGCUAACUUCCUUAAAUUCACCCCAACUGCGUCCGAUCCUCAGCUUCACCUUGAGUGGCACGCUGAGUUUCACGCAGUUCUCCAUGGUGAGGCUAAGGACUUUGGCUAUUUU
...(((((..((((((..((((((..((((((((..((..((((((.((((.....))))...))))))..))))))))))......))))))..))))))..)))))...... ( -45.40)
>DroGri_CAF1 17159 114 + 1
AACGUUGACCUCCUGUAGGUCACCCCAGCUGCGACCUAUUUUUAGCUUCACCCUGAGCGGCACACUUAAUUUGACACAGUUUUCCAUCGUCAGACUGAGGACUUUGGCCACUUU
.....((((((.....))))))..((((((((...(((....)))..((.....)))))))...((((.((((((.............)))))).)))).....)))....... ( -24.72)
>DroSec_CAF1 7523 114 + 1
CACGCUAAUCUCCUUUAAUUCACCCCAACUGCGUCCGAUCCUCAGCUUCACCUUGAGGGGCACGCUGAGUUUCACGCAGCUCUCCAUGGUGAUGCUAAGGACUUUGGCUAUUUU
...(((((..(((((....(((((....((((((..((..((((((....((.....))....))))))..))))))))........)))))....)))))..)))))...... ( -41.10)
>DroSim_CAF1 7930 114 + 1
CACGCUAAUCUCCUUUAAUUCACCCCAACUGCGUCCGAUCCUCAGCUUCACCUUUAGGGGCACGCUGAGUUUCACGCAGCUCUCCAUGGUGAUGCUAAGAACUUUGGCUAUUUU
...(((((....(((....(((((....((((((..((..((((((....((.....))....))))))..))))))))........)))))....)))....)))))...... ( -34.50)
>DroWil_CAF1 12288 114 + 1
UAUUCCUACUUCCUUCAAUGCACCCCAGCUGCGACCAAUCUUCAGUUUCACCUUGAGUGGUACACUCAGUUUGACGCAGCUUUCCAUGGUGAGACUUAAAACUUUGGCUAUUUU
....((..............((((..(((((((..............(((..(((((((...)))))))..))))))))))......))))..............))....... ( -22.42)
>DroYak_CAF1 7678 114 + 1
CAUCCUAAACUCCUGUAAUUCACCCCAACUGCGUCCAAUCCUCAGCUUUACCUUGAGGGGCACGCUGAGUUUCACGCAGUUCUCCAUGGUGAGGCUAAGGACUUUGGCUAUCUU
....(((((.((((....((((((..((((((((...(..((((((....((.....))....))))))..).))))))))......))))))....)))).)))))....... ( -37.60)
>consensus
CACGCUAACCUCCUUUAAUUCACCCCAACUGCGUCCGAUCCUCAGCUUCACCUUGAGGGGCACGCUGAGUUUCACGCAGCUCUCCAUGGUGAGGCUAAGGACUUUGGCUAUUUU
...(((((..((((.....(((((..((((((((..((..((((((....((......))...))))))..))))))))))......))))).....))))..)))))...... (-24.53 = -26.37 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 8,531,395 – 8,531,509
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 82.92
Mean single sequence MFE -37.52
Consensus MFE -27.25
Energy contribution -27.50
Covariance contribution 0.25
Combinations/Pair 1.36
Mean z-score -2.46
Structure conservation index 0.73
SVM decision value 0.67
SVM RNA-class probability 0.816585
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8531395 114 - 27905053
AAAAUAGCCAAAGUCCUUAGCCUCACCAUGGAGAACUGCGUGAAACUCAGCGUGCCACUCAAGGUGAAGCUGAGGAUCGGACGCAGUUGGGGUGAAUUUAAGGAAGUUAGCGUG
......((.((..(((((((..(((((......((((((((((..((((((..(((......)))...))))))..))..))))))))..)))))..)))))))..)).))... ( -45.60)
>DroGri_CAF1 17159 114 - 1
AAAGUGGCCAAAGUCCUCAGUCUGACGAUGGAAAACUGUGUCAAAUUAAGUGUGCCGCUCAGGGUGAAGCUAAAAAUAGGUCGCAGCUGGGGUGACCUACAGGAGGUCAACGUU
....(((((..(((..(((.(((((.(.(((...(((...........)))...))))))))).))).))).....((((((((.......)))))))).....)))))..... ( -33.40)
>DroSec_CAF1 7523 114 - 1
AAAAUAGCCAAAGUCCUUAGCAUCACCAUGGAGAGCUGCGUGAAACUCAGCGUGCCCCUCAAGGUGAAGCUGAGGAUCGGACGCAGUUGGGGUGAAUUAAAGGAGAUUAGCGUG
......((.((..(((((....(((((......((((((((((..((((((..(((......)))...))))))..))..))))))))..)))))....)))))..)).))... ( -40.00)
>DroSim_CAF1 7930 114 - 1
AAAAUAGCCAAAGUUCUUAGCAUCACCAUGGAGAGCUGCGUGAAACUCAGCGUGCCCCUAAAGGUGAAGCUGAGGAUCGGACGCAGUUGGGGUGAAUUAAAGGAGAUUAGCGUG
......((.((..(((((....(((((......((((((((((..((((((..(((......)))...))))))..))..))))))))..)))))....)))))..)).))... ( -37.10)
>DroWil_CAF1 12288 114 - 1
AAAAUAGCCAAAGUUUUAAGUCUCACCAUGGAAAGCUGCGUCAAACUGAGUGUACCACUCAAGGUGAAACUGAAGAUUGGUCGCAGCUGGGGUGCAUUGAAGGAAGUAGGAAUA
.............(((((..(((((((......(((((((((((.((.(((.((((......))))..)))..)).)))).)))))))..)))).......)))..)))))... ( -29.21)
>DroYak_CAF1 7678 114 - 1
AAGAUAGCCAAAGUCCUUAGCCUCACCAUGGAGAACUGCGUGAAACUCAGCGUGCCCCUCAAGGUAAAGCUGAGGAUUGGACGCAGUUGGGGUGAAUUACAGGAGUUUAGGAUG
.......(((((.((((.....(((((......((((((((((..((((((.((((......))))..))))))..))..))))))))..))))).....)))).))).))... ( -39.80)
>consensus
AAAAUAGCCAAAGUCCUUAGCCUCACCAUGGAGAACUGCGUGAAACUCAGCGUGCCCCUCAAGGUGAAGCUGAGGAUCGGACGCAGUUGGGGUGAAUUAAAGGAGGUUAGCGUG
.............((((.....(((((......((((((((((..((((((..(((......)))...))))))..))..))))))))..))))).....)))).......... (-27.25 = -27.50 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:40 2006