Locus 2214

Sequence ID 3R_DroMel_CAF1
Location 6,321,337 – 6,321,467
Length 130
Max. P 0.744951
window3595 window3596

overview

Window 5

Location 6,321,337 – 6,321,441
Length 104
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 89.42
Mean single sequence MFE -34.85
Consensus MFE -24.81
Energy contribution -24.75
Covariance contribution -0.06
Combinations/Pair 1.14
Mean z-score -2.15
Structure conservation index 0.71
SVM decision value 0.46
SVM RNA-class probability 0.744951
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6321337 104 + 27905053
UUUGCCAACCCAUUCCGGUCAAAUCUCUAUCACUGCUCACCUGCCAGGUGCCUGGUGACUGCCAACUGGUAACUGGCAACUGGCAACUGGGU--AUCUGGUAAGUG
((((((((((......)))..............((((((..((((((.((((.(....)((((....))))...)))).))))))..)))))--)..))))))).. ( -36.00)
>DroSec_CAF1 86169 106 + 1
UUUGCCAACCCAUUCCGGCCAAAUCUCUAUCACUGCUCACCUGCCAGGUGCCUGGUGACUGCCAACUGGUAACGGGUAACUGGCAACUGGGUAUAUCUGGUAAGUG
(((((((..((.....))...............((((((..((((((.((((((.....((((....)))).)))))).))))))..))))))....))))))).. ( -34.90)
>DroEre_CAF1 93365 97 + 1
UUUGCCAACCCAUUCCGGCCAAAUCUCUGUCACUGCUCACCUGCCAGGUGGCUGGUGACUGCCAACUGGUAACUG-------GUAACUGGGU--AUCUGGUAAGUG
((((((((((((..((((..........((((((((.((((.....)))))).))))))((((....)))).)))-------)....)))))--...))))))).. ( -37.10)
>DroYak_CAF1 85922 98 + 1
UUUGCCAACCCAUUCUGGCCAAAUCUCUAUCACUGCUCACCUGCCAGCUGGCUGGUGACUGUUAACUGGUAACUGG------GUAUCUGGGU--AUCUGGUAAGUG
((((((((((((...(((........)))....((((((..((((((.((((.(....).)))).))))))..)))------)))..)))))--...))))))).. ( -31.40)
>consensus
UUUGCCAACCCAUUCCGGCCAAAUCUCUAUCACUGCUCACCUGCCAGGUGCCUGGUGACUGCCAACUGGUAACUGG______GCAACUGGGU__AUCUGGUAAGUG
((((((((((((.....(((.........((((((..((((.....))))..)))))).((((....))))..........)))...))))).....))))))).. (-24.81 = -24.75 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 6,321,366 – 6,321,467
Length 101
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 80.90
Mean single sequence MFE -34.98
Consensus MFE -20.37
Energy contribution -20.80
Covariance contribution 0.44
Combinations/Pair 1.13
Mean z-score -1.99
Structure conservation index 0.58
SVM decision value 0.18
SVM RNA-class probability 0.621274
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6321366 101 + 27905053
UCACUGCUCACCUGCCAGGUGCCUGGUGACUGCCAACUGGUAACUGGCAACUGGCAACUGGGU--AUCUGGUAAGUGGCGAAUGGUAACGGGCAGAUCACUGC
...((((((...(((((((((((..((...(((((..((.(....).))..)))))))..)))--)))))))).((.((.....)).))))))))........ ( -40.80)
>DroSec_CAF1 86198 103 + 1
UCACUGCUCACCUGCCAGGUGCCUGGUGACUGCCAACUGGUAACGGGUAACUGGCAACUGGGUAUAUCUGGUAAGUGGCGAAUGGUAACGGGCAGAUCACUGC
...((((((...(((((((((((..((...(((((.(((....))).....)))))))..)))..)))))))).((.((.....)).))))))))........ ( -37.20)
>DroEre_CAF1 93394 85 + 1
UCACUGCUCACCUGCCAGGUGGCUGGUGACUGCCAACUGGUAACUG-------GUAACUGGGU--AUCUGGUAAGUGGCGAAUGGUAA---------CACUGC
....(((.(((.(((((((((.(..((.((((((....)))....)-------)).))..).)--)))))))).))))))........---------...... ( -30.20)
>DroYak_CAF1 85951 81 + 1
UCACUGCUCACCUGCCAGCUGGCUGGUGACUGUUAACUGGUAACUGG------GUAUCUGGGU--AUCUGGUAAGUGGCAGAU--------------CACUGC
...((((.(((.((((((.((((.(....).)))).))))))((..(------((((....))--)))..))..)))))))..--------------...... ( -31.70)
>consensus
UCACUGCUCACCUGCCAGGUGCCUGGUGACUGCCAACUGGUAACUGG______GCAACUGGGU__AUCUGGUAAGUGGCGAAUGGUAA_________CACUGC
....(((.(((.(((((((((((..((...((((....))))..............))..)))..)))))))).))))))....................... (-20.37 = -20.80 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:02 2006