Locus 5218

Sequence ID X_DroMel_CAF1
Location 13,623,575 – 13,623,774
Length 199
Max. P 0.963581
window8460 window8461

overview

Window 0

Location 13,623,575 – 13,623,695
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.43
Mean single sequence MFE -23.03
Consensus MFE -12.40
Energy contribution -12.60
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.82
Structure conservation index 0.54
SVM decision value 1.55
SVM RNA-class probability 0.963581
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13623575 120 - 22224390
GCCUGCACAAGUAUGCAAUUGUUUGUGGCAAACAAAAUGCCAAACAGAAAAAAGAAGCGACAACAAACAAGAGCACCGACAAACUUUUAAUACAUAAAAAAGAAUACAAUGUGUAGCUUU
((.((((((.((.(((..((((((((((((.......))))............(......).))))))))..)))...))...(((((.........))))).......))))))))... ( -24.80)
>DroSec_CAF1 9412 117 - 1
GCCUGCACAAGUAUGCAAUUGUUUGUGGCAAACAAAAUGCCAAACAAAA-AAAAAUGCGACAACAAACAAGAGCACAGA-AAACUUUAAAAA-CCAAAAAGGAAUAUAACGUGUAGCUUA
((.(((((.....(((..((((((((((((.......))))...((...-.....)).....))))))))..)))....-............-((.....))........)))))))... ( -23.70)
>DroSim_CAF1 9429 119 - 1
GCCUGCACAAGUAUGCAAUUGUUUGUGGCAAACAAAAUGCCAAACAAAAAAAAAAUGCGACAACAAACAAGAGCACAGA-AAGCUUUGGAACCCCAAAAAGGAAUACAACGUGUAGCUUA
((.(((((..((((((..((((((((((((.......))))..............((...))))))))))..)).....-....(((((....))))).....))))...)))))))... ( -25.80)
>DroEre_CAF1 9547 111 - 1
GCCUGCACAAGUAUGCAAUUGUUUGUGGCAAACAAACUGGCAAACAGAAA--AAGUGGGAAUACAAACAAGAGCACAGA-AAACUUUAAGUA-C-AAA----AAUAAGACAUGUUGCUUG
.......(((((((((..(((((((((.((......(((.....)))...--...))....)))))))))..)))....-..((.....)).-.-...----............)))))) ( -18.80)
>DroYak_CAF1 8908 104 - 1
GCCUGCACAAGUAUGCAAUUGUUUGUGGCAAACAAAAUGCCAAACAGAUA--AAGUCCGAAAACAAACAAGAGCACAGA-AAAGUUUGUGGA-C-AAAA---AAUAA--------GCUCA
((.(((....))).))..((((((((((((.......))))..)))))))--).((((....((((((...........-...)))))))))-)-....---.....--------..... ( -22.04)
>consensus
GCCUGCACAAGUAUGCAAUUGUUUGUGGCAAACAAAAUGCCAAACAGAAAAAAAAUGCGACAACAAACAAGAGCACAGA_AAACUUUAAAAA_C_AAAAA_GAAUAAAACGUGUAGCUUA
((.(((....)))(((..((((((((((((.......))))...(.............)...))))))))..)))........................................))... (-12.40 = -12.60 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 13,623,655 – 13,623,774
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.70
Mean single sequence MFE -31.56
Consensus MFE -24.85
Energy contribution -25.65
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.79
SVM decision value 0.36
SVM RNA-class probability 0.705677
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13623655 119 + 22224390
GCAUUUUGUUUGCCACAAACAAUUGCAUACUUGUGCAGGCUCUAGACAUUUGGAGCAUUCUUCCUGCAUUCGUUGCGAUUUUCAUACCUGGUAAAUUGGUGUUA-AGGAAAGGGGUAGAU
.......(((((((........(((((.((..(((((((((((((....))))))).......))))))..)))))))((((((((((.........)))))..-.)))))..))))))) ( -31.41)
>DroSec_CAF1 9489 111 + 1
GCAUUUUGUUUGCCACAAACAAUUGCAUACUUGUGCAGGCUCUAGACAUUUGGAGCGUUCUUCCUGCAUUCGGUGCGAUUUUCAUACCUGGUAAUUUGUUGUUA-A-----GGGGUA---
.....(((((((...)))))))((((((....(((((((((((((....)))))))(.....)))))))...))))))......(((((..((((.....))))-.-----.)))))--- ( -31.10)
>DroSim_CAF1 9508 114 + 1
GCAUUUUGUUUGCCACAAACAAUUGCAUACUUGUGCAGGCUCUAGAAAUUUGGAGCGUUCUUCCUGCAUUCGGUGCGAUUUUCAUACCUGGUAAUUUGUUGUUA-A-----GGGGUAUAU
.....(((((((...)))))))((((((....(((((((((((((....)))))))(.....)))))))...)))))).....((((((..((((.....))))-.-----.)))))).. ( -32.90)
>DroEre_CAF1 9618 114 + 1
CCAGUUUGUUUGCCACAAACAAUUGCAUACUUGUGCAGGCUCUAGACAUUUGGAGCGUUCUUCCUGCAUUCGGUACGAUUUUCAUACCUUCUAAUUUGGUGUUA-A-----GGGGUACAU
...((((((.....))))))(((((..((((.(((((((((((((....)))))))(.....)))))))..)))))))))....(((((..((((.....))))-.-----.)))))... ( -29.70)
>DroYak_CAF1 8972 115 + 1
GCAUUUUGUUUGCCACAAACAAUUGCAUACUUGUGCAGGCUCUAGACAUUUGGAGCGUUCUUCCUGCAUUCGGUGCGAUUUUCAUACCUGCUAAUUUGGUGUUAAA-----GGGGUACAU
(((..(((((((...))))))).)))...(..(((((((((((((....)))))))(.....)))))))..)((((..((((.(((((.........))))).)))-----)..)))).. ( -32.70)
>consensus
GCAUUUUGUUUGCCACAAACAAUUGCAUACUUGUGCAGGCUCUAGACAUUUGGAGCGUUCUUCCUGCAUUCGGUGCGAUUUUCAUACCUGGUAAUUUGGUGUUA_A_____GGGGUACAU
..........((((......((((((((....(((((((((((((....))))))).......))))))...))))))))...(((((.........)))))...........))))... (-24.85 = -25.65 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:36 2006