Locus 10303

Sequence ID 3R_DroMel_CAF1
Location 27,624,936 – 27,625,055
Length 119
Max. P 0.878480
window16403 window16404

overview

Window 3

Location 27,624,936 – 27,625,055
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 78.66
Mean single sequence MFE -31.20
Consensus MFE -14.27
Energy contribution -14.30
Covariance contribution 0.03
Combinations/Pair 1.38
Mean z-score -2.42
Structure conservation index 0.46
SVM decision value 0.59
SVM RNA-class probability 0.792629
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27624936 119 + 27905053
CGACUACCAUCAGAUCAUCAAAACGCCCAUGGAUCUAGCUAAAAUCAAAUCCAAGCUAAACAUGGGCGCCUACCAGCUAAACGAGGAGCUGCUCAGCGACAUUCAGUUGGUGUUUAGAA
.................((.(((((((((((....(((((.............)))))..)))))))....(((((((.((...(..(((....)))..).)).))))))))))).)). ( -32.12)
>DroVir_CAF1 5146 119 + 1
GGAUUAUCAUAAGAUAAUUAAGUCGCCCAUGGAUCUGGCUAAAAUCAAGUCCAAGCUAAACAUGGGCGAAUAUCAUUUGAACGAGGAGCUGCUCAACGAUAUCCAGUUAGUGUUCAAAA
.(((((((....)))))))...(((((((((....(((((.............)))))..)))))))))......((((((((...(((((............)))))..)))))))). ( -36.12)
>DroGri_CAF1 5617 119 + 1
CGACUACCAUAAGAUAAUUAAGACGCCAAUGGAUCUGGCCAAAAUCAAAUCAAAAUUAAAUAUGGGCCAAUAUCAAAUAAACGAGGAGGUGCUCAGCGAUAUCCAGUUGGUGUUCAAGA
.....................(((((((((((((.(((((.......(((....))).......)))))............((..(((...)))..))..))))).))))))))..... ( -25.14)
>DroWil_CAF1 4929 119 + 1
UGAUUAUCAUCAAAUUGUUAAAACACCCAUGGACUUGGCCAAAGUCAAGUCCAAACUGAAUAUGGGUGAAUAUCAAUUAAACGAAGAAUUGCUGAACGAUAUCCAGUUGGUCUUUCACA
((((....))))(((((......((((((((((((((((....)))))))))).........)))))).....)))))....(((((...((((.........))))...))))).... ( -32.00)
>DroMoj_CAF1 5222 119 + 1
AGACUACCAUAAGAUAAUUAAGACGCCCAUGGAUCUGGCCAAGAUCAAGUCAAAGCUAAAUAUGGGUGAAUAUCAAUUAAACGAGGAAUUGCUUAACGAUAUUCAGCUGGUGUUCAAAA
.((.(((((...............((((((((((((.....))))).(((....)))...)))))))(((((((..((((.(((....))).)))).)))))))...))))).)).... ( -29.80)
>DroAna_CAF1 5103 119 + 1
GGACUACCACCAGAUUAUCAAGGCACCGAUGGACCUGGCCAAAAUCAAGUCCAAGUUGAACAUGGGACAGUAUCAGCUAAACGAGGAGCUUCUGAACGACGUUCAAUUGGUGUUCCGGA
(((.((((.....................(((((.(((......))).)))))((((((((.(.(..(((....((((........)))).)))..).).)))))))))))).)))... ( -32.00)
>consensus
CGACUACCAUAAGAUAAUUAAGACGCCCAUGGAUCUGGCCAAAAUCAAGUCCAAGCUAAACAUGGGCGAAUAUCAAUUAAACGAGGAGCUGCUCAACGAUAUCCAGUUGGUGUUCAAAA
.((.(((((..............(((((((((((.(((......))).))).........)))))))).....(((((........)))))................))))).)).... (-14.27 = -14.30 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 27,624,936 – 27,625,055
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 78.66
Mean single sequence MFE -32.33
Consensus MFE -18.82
Energy contribution -20.38
Covariance contribution 1.56
Combinations/Pair 1.42
Mean z-score -2.11
Structure conservation index 0.58
SVM decision value 0.90
SVM RNA-class probability 0.878480
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27624936 119 - 27905053
UUCUAAACACCAACUGAAUGUCGCUGAGCAGCUCCUCGUUUAGCUGGUAGGCGCCCAUGUUUAGCUUGGAUUUGAUUUUAGCUAGAUCCAUGGGCGUUUUGAUGAUCUGAUGGUAGUCG
........((((.(((((((..(((....)))....))))))).))))((((((((((((((((((..(((...)))..)))))))..))))))))))).(((.(((....))).))). ( -40.90)
>DroVir_CAF1 5146 119 - 1
UUUUGAACACUAACUGGAUAUCGUUGAGCAGCUCCUCGUUCAAAUGAUAUUCGCCCAUGUUUAGCUUGGACUUGAUUUUAGCCAGAUCCAUGGGCGACUUAAUUAUCUUAUGAUAAUCC
...............((((((((((((((........)))).))))))))))(((((((..(...((((.((.......)))))))..)))))))......((((((....)))))).. ( -32.80)
>DroGri_CAF1 5617 119 - 1
UCUUGAACACCAACUGGAUAUCGCUGAGCACCUCCUCGUUUAUUUGAUAUUGGCCCAUAUUUAAUUUUGAUUUGAUUUUGGCCAGAUCCAUUGGCGUCUUAAUUAUCUUAUGGUAGUCG
......((.((((.(((((((((.(((((........)))))..)))).((((((...(((.(((....))).)))...))))))))))))))).))....((((((....)))))).. ( -25.30)
>DroWil_CAF1 4929 119 - 1
UGUGAAAGACCAACUGGAUAUCGUUCAGCAAUUCUUCGUUUAAUUGAUAUUCACCCAUAUUCAGUUUGGACUUGACUUUGGCCAAGUCCAUGGGUGUUUUAACAAUUUGAUGAUAAUCA
..(((.(((....((((((...))))))....)))(((((.(((((.((..((((((.........((((((((........))))))))))))))...)).))))).)))))...))) ( -30.70)
>DroMoj_CAF1 5222 119 - 1
UUUUGAACACCAGCUGAAUAUCGUUAAGCAAUUCCUCGUUUAAUUGAUAUUCACCCAUAUUUAGCUUUGACUUGAUCUUGGCCAGAUCCAUGGGCGUCUUAAUUAUCUUAUGGUAGUCU
....((..((((..(((((((((((((((........)))))).)))))))))(((((((((.(((..((.....))..))).))))..)))))................))))..)). ( -29.10)
>DroAna_CAF1 5103 119 - 1
UCCGGAACACCAAUUGAACGUCGUUCAGAAGCUCCUCGUUUAGCUGAUACUGUCCCAUGUUCAACUUGGACUUGAUUUUGGCCAGGUCCAUCGGUGCCUUGAUAAUCUGGUGGUAGUCC
...(((.(((((..(((((((.(..(((.((((........))))....)))..).)))))))(((((((((((........))))))))..)))............)))))....))) ( -35.20)
>consensus
UUUUGAACACCAACUGAAUAUCGUUGAGCAGCUCCUCGUUUAAUUGAUAUUCGCCCAUAUUUAGCUUGGACUUGAUUUUGGCCAGAUCCAUGGGCGUCUUAAUUAUCUGAUGGUAGUCC
........((((...((((((((((((((........))))))).)))))))((((((.........(((((((........)))))))))))))...............))))..... (-18.82 = -20.38 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:53:39 2006