Locus 846

Sequence ID 2L_DroMel_CAF1
Location 2,407,156 – 2,407,261
Length 105
Max. P 0.882278
window1372 window1373

overview

Window 2

Location 2,407,156 – 2,407,261
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.73
Mean single sequence MFE -42.29
Consensus MFE -34.78
Energy contribution -34.39
Covariance contribution -0.38
Combinations/Pair 1.26
Mean z-score -2.19
Structure conservation index 0.82
SVM decision value 0.92
SVM RNA-class probability 0.882278
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2407156 105 + 22407834
---------------UAGCCUACCGGGUGUUGGACUACAGUCUUCACCCUGGCCGCCUGUGUUCAUUUGGUUGGCUGCACUUUCUAUGGUAUUUUCGCAUCUGGAGAGCUGCAGCCGUGG
---------------....((((.(((((..((((....)))).))))).(((((..((....))..)))))((((((((((((((.(((........)))))))))).))))))))))) ( -40.70)
>DroPse_CAF1 35815 112 + 1
--------AUCGUUGCAGCCCACUGGCUGUUGGACCACUGUGUUCACCCUGGCCGCCUGUGUUCAUCUGGUGGGCUGCACUUUCUACGGCAUCUUCGCCUCUGGAGAGCUGCAGCCCUGG
--------......((((((....))))))...((((..(((..(((...((...)).)))..))).))))(((((((((((((((.(((......)))..))))))).))))))))... ( -45.70)
>DroEre_CAF1 26311 120 + 1
UAUAUUCUAAUGUUUCAGCCCACCGGUUGCUGGACCACUGUCUUCACCCUGGCCGCAUGUGUUCACUUGGUUGGCUGCACUUUCUACGGCGUUUUUGCCUCCGGAGAGCUGCAGCCGUGG
.............((((((((...))..))))))((((............(((((..((....))..)))))(((((((((((((..((((....))))...)))))).))))))))))) ( -39.90)
>DroYak_CAF1 27284 120 + 1
UAUAUUCAAUUGUUUCAGCCCACCGGUUGCUGGACCACUGUCUUCACCCUGGCCGCCUGUGUUCAUUUGGUUGGCUGCACUUUCUACGGCAUUUUUGCCUCCGGAGAGCUGCAGCCGUGG
.............((((((((...))..))))))((((............(((((..((....))..)))))(((((((((((((..((((....))))...)))))).))))))))))) ( -40.60)
>DroAna_CAF1 31266 114 + 1
--AAUUAAA----UUUAGCCCACCGGCUGCUGGACCACCGUCUUCACCUUGGCCGCCUGUGUUCAUUUGAUUGGCUGCACUUUCUACGGAAUCUUUGCUUCCGGAGAGUUGCAGCCUUGG
--(((((((----(...(..(((.(((.(((((((....)))).......))).))).)))..)))))))))((((((((((((..(((((.......)))))))))).))))))).... ( -38.81)
>DroPer_CAF1 37038 112 + 1
--------AUCGUUGCAGCCCACUGGCUGCUGGACCACUGUGUUCACCCUGGCCGCCUGUGUUCAUCUGGUGGGCUGCACUUUCUACGGCAUCUUCGCCUCUGGAGAGCUGCAGCCCUGG
--------......((((((....))))))...((((..(((..(((...((...)).)))..))).))))(((((((((((((((.(((......)))..))))))).))))))))... ( -48.00)
>consensus
________AU_GUUUCAGCCCACCGGCUGCUGGACCACUGUCUUCACCCUGGCCGCCUGUGUUCAUUUGGUUGGCUGCACUUUCUACGGCAUCUUCGCCUCCGGAGAGCUGCAGCCGUGG
.................(..(((.(((.((..(...............)..)).))).)))..).......((((((((((((((..(((......)))...)))))).))))))))... (-34.78 = -34.39 +  -0.38) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 2,407,156 – 2,407,261
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.73
Mean single sequence MFE -39.20
Consensus MFE -26.60
Energy contribution -28.10
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.68
SVM decision value 0.17
SVM RNA-class probability 0.619015
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2407156 105 - 22407834
CCACGGCUGCAGCUCUCCAGAUGCGAAAAUACCAUAGAAAGUGCAGCCAACCAAAUGAACACAGGCGGCCAGGGUGAAGACUGUAGUCCAACACCCGGUAGGCUA---------------
....(((((((.((.((...(((.(......)))).)).)))))))))...............(((.(((.(((((..(((....)))...))))))))..))).--------------- ( -33.80)
>DroPse_CAF1 35815 112 - 1
CCAGGGCUGCAGCUCUCCAGAGGCGAAGAUGCCGUAGAAAGUGCAGCCCACCAGAUGAACACAGGCGGCCAGGGUGAACACAGUGGUCCAACAGCCAGUGGGCUGCAACGAU--------
...((((((((.((.((....(((......)))...)).))))))))))...............((((((...(....).((.((((......)))).))))))))......-------- ( -42.50)
>DroEre_CAF1 26311 120 - 1
CCACGGCUGCAGCUCUCCGGAGGCAAAAACGCCGUAGAAAGUGCAGCCAACCAAGUGAACACAUGCGGCCAGGGUGAAGACAGUGGUCCAGCAACCGGUGGGCUGAAACAUUAGAAUAUA
(((((((((((.((.((....(((......)))...)).)))))))))...............((((((((..((....))..))).)).)))....)))).((((....))))...... ( -37.20)
>DroYak_CAF1 27284 120 - 1
CCACGGCUGCAGCUCUCCGGAGGCAAAAAUGCCGUAGAAAGUGCAGCCAACCAAAUGAACACAGGCGGCCAGGGUGAAGACAGUGGUCCAGCAACCGGUGGGCUGAAACAAUUGAAUAUA
....(((((((.((.((....((((....))))...)).)))))))))...(((.((....(((.(.(((.((.((..(((....)))...)).))))).).)))...)).)))...... ( -38.80)
>DroAna_CAF1 31266 114 - 1
CCAAGGCUGCAACUCUCCGGAAGCAAAGAUUCCGUAGAAAGUGCAGCCAAUCAAAUGAACACAGGCGGCCAAGGUGAAGACGGUGGUCCAGCAGCCGGUGGGCUAAA----UUUAAUU--
....(((((((..(((.(((((.......))))).)))...)))))))........(..(((.((((((((..((....))..))))).....))).)))..)....----.......-- ( -39.20)
>DroPer_CAF1 37038 112 - 1
CCAGGGCUGCAGCUCUCCAGAGGCGAAGAUGCCGUAGAAAGUGCAGCCCACCAGAUGAACACAGGCGGCCAGGGUGAACACAGUGGUCCAGCAGCCAGUGGGCUGCAACGAU--------
...((((((((.((.((....(((......)))...)).))))))))))...............(.(((((..((....))..)))))).((((((....))))))......-------- ( -43.70)
>consensus
CCACGGCUGCAGCUCUCCAGAGGCAAAAAUGCCGUAGAAAGUGCAGCCAACCAAAUGAACACAGGCGGCCAGGGUGAAGACAGUGGUCCAGCAGCCGGUGGGCUGAAAC_AU________
....(((((((.((.((....(((......)))...)).))))))))).................(((((.((.((..(((....)))...)).))....)))))............... (-26.60 = -28.10 +   1.50) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:59 2006