Locus 4637

Sequence ID 3R_DroMel_CAF1
Location 12,193,510 – 12,193,617
Length 107
Max. P 0.727598
window7625 window7626

overview

Window 5

Location 12,193,510 – 12,193,617
Length 107
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 90.19
Mean single sequence MFE -38.60
Consensus MFE -32.56
Energy contribution -33.38
Covariance contribution 0.81
Combinations/Pair 1.03
Mean z-score -1.61
Structure conservation index 0.84
SVM decision value 0.42
SVM RNA-class probability 0.727598
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12193510 107 + 27905053
UCUUAGAUGUUGGGCUCGAGAUGCCGAUGUCGAAUCCGAUGUCGACUCCAACCGAUCGGCGGUGGGCUCACCUUCGCCCGCGUCUUCAGUUGACGGAGUAUCUUAAA
.....((((((((..((((.((....)).))))..)))))))).(((((..((....))..((((((........))))))(((.......))))))))........ ( -39.70)
>DroSec_CAF1 7249 107 + 1
UCUUAGAUGUUGGGCUCGAGAUGCCGAUGUCGAAUCCGAUGUCGACUCCAACCGAUCGGCGGCGGGCUCACCUUCGCCCGCGUCUCCAGUUGACGGAGUAUCUUAAA
.....((((((((..((((.((....)).))))..)))))))).(((((..((....))..((((((........))))))(((.......))))))))........ ( -41.60)
>DroEre_CAF1 7416 107 + 1
UCUUAGAUGUUGGGCUCGAGAUGCCGAUGCCGUUUCCGAAGUCGAUGCCAACCGAUCGGCGGCGGGCUCACCUUCGCCCGCGUCUUCAGUUGACGGAGUAUCUUAAA
.................(((((((.....(((((..(((((.(..((((........))))((((((........))))))).)))).)..))))).)))))))... ( -37.20)
>DroYak_CAF1 7152 95 + 1
UCUAAGAUGUUGGGCUCGAGAUUCCGAU------------GUCGAUUCCAACCGAUCGGCGGCGGGCUCACCUUCGCCCGCGUCUUCAGUUGACGGAGUAUCUUAAA
..(((((((((((..((((.((....))------------.))))..))))(((.(((((.((((((........))))))(....).))))))))..))))))).. ( -35.90)
>consensus
UCUUAGAUGUUGGGCUCGAGAUGCCGAUGUCGAAUCCGAUGUCGACUCCAACCGAUCGGCGGCGGGCUCACCUUCGCCCGCGUCUUCAGUUGACGGAGUAUCUUAAA
.................(((((((((((((((....)))))))).......(((.(((((.((((((........))))))(....).)))))))).)))))))... (-32.56 = -33.38 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 12,193,510 – 12,193,617
Length 107
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 90.19
Mean single sequence MFE -36.72
Consensus MFE -29.23
Energy contribution -29.35
Covariance contribution 0.12
Combinations/Pair 1.07
Mean z-score -1.56
Structure conservation index 0.80
SVM decision value 0.18
SVM RNA-class probability 0.620898
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12193510 107 - 27905053
UUUAAGAUACUCCGUCAACUGAAGACGCGGGCGAAGGUGAGCCCACCGCCGAUCGGUUGGAGUCGACAUCGGAUUCGACAUCGGCAUCUCGAGCCCAACAUCUAAGA
....((((....((((.......)))).((((...((((....))))((((((..((((((..((....))..)))))))))))).......))))...)))).... ( -38.00)
>DroSec_CAF1 7249 107 - 1
UUUAAGAUACUCCGUCAACUGGAGACGCGGGCGAAGGUGAGCCCGCCGCCGAUCGGUUGGAGUCGACAUCGGAUUCGACAUCGGCAUCUCGAGCCCAACAUCUAAGA
....((((.(((((.....)))))....((((...((((....))))((((((..((((((..((....))..)))))))))))).......))))...)))).... ( -39.80)
>DroEre_CAF1 7416 107 - 1
UUUAAGAUACUCCGUCAACUGAAGACGCGGGCGAAGGUGAGCCCGCCGCCGAUCGGUUGGCAUCGACUUCGGAAACGGCAUCGGCAUCUCGAGCCCAACAUCUAAGA
....((((....((((.......)))).((((..(((((.(((.((((.....)))).))).((((..(((....)))..)))))))))...))))...)))).... ( -37.90)
>DroYak_CAF1 7152 95 - 1
UUUAAGAUACUCCGUCAACUGAAGACGCGGGCGAAGGUGAGCCCGCCGCCGAUCGGUUGGAAUCGAC------------AUCGGAAUCUCGAGCCCAACAUCUUAGA
((((((((.....(((.......)))((((((........)))))).........(((((..((((.------------((....)).))))..))))))))))))) ( -31.20)
>consensus
UUUAAGAUACUCCGUCAACUGAAGACGCGGGCGAAGGUGAGCCCGCCGCCGAUCGGUUGGAAUCGACAUCGGAUUCGACAUCGGCAUCUCGAGCCCAACAUCUAAGA
....((((....((((.......)))).((((...((((....))))((((((..((((....)))).(((....))).)))))).......))))...)))).... (-29.23 = -29.35 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:20 2006