Locus 7928

Sequence ID 3L_DroMel_CAF1
Location 21,064,456 – 21,064,575
Length 119
Max. P 0.996122
window12927 window12928

overview

Window 7

Location 21,064,456 – 21,064,575
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -25.11
Consensus MFE -21.54
Energy contribution -21.58
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -2.60
Structure conservation index 0.86
SVM decision value 2.66
SVM RNA-class probability 0.996122
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21064456 119 + 23771897
CAAAACAUGCACACACCCACAUGCAGGUGGCAAAAACUCCACCUCACAACCCGUUU-UUCUCAUUGCCAAGAAAACUACUGAGCUUUGCACAGACUUCUUCACUUUCUUCUUGUGCGUGC
.....((((((((........((.((((((........))))))))........((-((((........))))))...(((.((...)).)))..................)))))))). ( -24.80)
>DroSec_CAF1 119465 120 + 1
CAAAACAUGCACACACCCACAUGCAGGUGGCGAAAACUCCACCUCACAACCCGUUUUUUCUCAUUGCCAAGAAAACUACUGAGCUUUGCACACACUUCUUCACUUUCUUCUUGUGCGUGC
.....((((((((........((.((((((.(....).))))))))......((.((((((........))))))..))................................)))))))). ( -23.40)
>DroSim_CAF1 25723 120 + 1
CAAAACAUGCACACACCCACAUGCAGGUGGCGAAAACUCCACCUCACAACCCGUUUUUUCUCAUUGCCAAGAAAACUACUGAGCUUUGCACACACUUCUUCACUUUCUUCUUGUGCGUGC
.....((((((((........((.((((((.(....).))))))))......((.((((((........))))))..))................................)))))))). ( -23.40)
>DroEre_CAF1 42312 120 + 1
CAAAACAUGCACACACCCACAUGCAGGUGGCAAAAACUCCACCUCACAACCCGUUUUUUCUUAUUGCGAAGAAAACUACUGAGCUUUGCACACACUUCUUCACUUUCUUCUUGUGCGUGA
.....((((((((........((.((((((........))))))))..................(((((((............))))))).....................)))))))). ( -26.80)
>DroYak_CAF1 12732 120 + 1
GGAAACAUGCUCACACCCACAUGCAGGUGGCAAAAACUCCACCUCACAACCCGUUUUUUCUCAUUGCCAAGAAAACUACUGAGCUUUGCACACACUUCUUCACUUUCUUCUUGUGCGUGC
(....)..(((((........((.((((((........))))))))......((.((((((........))))))..)))))))...((((.(((.................))).)))) ( -27.13)
>consensus
CAAAACAUGCACACACCCACAUGCAGGUGGCAAAAACUCCACCUCACAACCCGUUUUUUCUCAUUGCCAAGAAAACUACUGAGCUUUGCACACACUUCUUCACUUUCUUCUUGUGCGUGC
.....((((((((........((.((((((........))))))))...............((..((..((.......))..))..)).......................)))))))). (-21.54 = -21.58 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 8

Location 21,064,456 – 21,064,575
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.83
Mean single sequence MFE -35.46
Consensus MFE -32.19
Energy contribution -32.63
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.80
Structure conservation index 0.91
SVM decision value 1.93
SVM RNA-class probability 0.982999
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21064456 119 - 23771897
GCACGCACAAGAAGAAAGUGAAGAAGUCUGUGCAAAGCUCAGUAGUUUUCUUGGCAAUGAGAA-AAACGGGUUGUGAGGUGGAGUUUUUGCCACCUGCAUGUGGGUGUGUGCAUGUUUUG
((((((((.........((.((((((.(((.((...)).)))....)))))).))........-...((.((.((.((((((........)))))))))).)).))))))))........ ( -37.70)
>DroSec_CAF1 119465 120 - 1
GCACGCACAAGAAGAAAGUGAAGAAGUGUGUGCAAAGCUCAGUAGUUUUCUUGGCAAUGAGAAAAAACGGGUUGUGAGGUGGAGUUUUCGCCACCUGCAUGUGGGUGUGUGCAUGUUUUG
((((((((.................))))))))..(((((.((..(((((((......))))))).)))))))...((((((.(....).))))))((((((........)))))).... ( -35.53)
>DroSim_CAF1 25723 120 - 1
GCACGCACAAGAAGAAAGUGAAGAAGUGUGUGCAAAGCUCAGUAGUUUUCUUGGCAAUGAGAAAAAACGGGUUGUGAGGUGGAGUUUUCGCCACCUGCAUGUGGGUGUGUGCAUGUUUUG
((((((((.................))))))))..(((((.((..(((((((......))))))).)))))))...((((((.(....).))))))((((((........)))))).... ( -35.53)
>DroEre_CAF1 42312 120 - 1
UCACGCACAAGAAGAAAGUGAAGAAGUGUGUGCAAAGCUCAGUAGUUUUCUUCGCAAUAAGAAAAAACGGGUUGUGAGGUGGAGUUUUUGCCACCUGCAUGUGGGUGUGUGCAUGUUUUG
.(((((((.........(((....((.(((.(((((((((.........(((((((((..(......)..)))))))))..))).))))))))))).)))....)))))))......... ( -32.72)
>DroYak_CAF1 12732 120 - 1
GCACGCACAAGAAGAAAGUGAAGAAGUGUGUGCAAAGCUCAGUAGUUUUCUUGGCAAUGAGAAAAAACGGGUUGUGAGGUGGAGUUUUUGCCACCUGCAUGUGGGUGUGAGCAUGUUUCC
((((((((.................))))))))...(((((....(((((((......)))))))..((.((.((.((((((........)))))))))).))....)))))........ ( -35.83)
>consensus
GCACGCACAAGAAGAAAGUGAAGAAGUGUGUGCAAAGCUCAGUAGUUUUCUUGGCAAUGAGAAAAAACGGGUUGUGAGGUGGAGUUUUUGCCACCUGCAUGUGGGUGUGUGCAUGUUUUG
((((((((.................))))))))..(((((.((..(((((((......))))))).)))))))...((((((........))))))((((((........)))))).... (-32.19 = -32.63 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:07 2006