Locus 5537

Sequence ID 3R_DroMel_CAF1
Location 14,622,689 – 14,622,779
Length 90
Max. P 0.850943
window9030 window9031

overview

Window 0

Location 14,622,689 – 14,622,779
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 79.38
Mean single sequence MFE -21.30
Consensus MFE -16.38
Energy contribution -16.35
Covariance contribution -0.03
Combinations/Pair 1.12
Mean z-score -1.32
Structure conservation index 0.77
SVM decision value 0.50
SVM RNA-class probability 0.761334
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14622689 90 + 27905053
UGGCUUGGUUGUGCCAGUGAAUUAGCACAAACCGCAUGUUAGAUUCGUUGAUAACAUGCCACCAACGCCCAUCCUUGGUCCGCCCACAUC
.(((((((((((((..........)))))....((((((((..........)))))))).))))).)))......(((.....))).... ( -24.20)
>DroPse_CAF1 35650 72 + 1
UGGCUUGGUUCUGCGAGUGAAUUAGCACAAGCCGCAUGUUAGAUUUGUUGAUAACAUGCCACCC------------------CCAACAUC
.((((((....(((..........)))))))))((((((((..........)))))))).....------------------........ ( -19.40)
>DroEre_CAF1 36275 80 + 1
UGGCUCGGUUGUGCCAGUGAAUUAGCACAAACCGCAUGUUAGAUUCGUUGAUAACAUGCCAGCACCUCCCAUCCU----------ACAGC
.((...((..((((..(((......))).....((((((((..........))))))))..))))..))...)).----------..... ( -20.60)
>DroYak_CAF1 38091 90 + 1
UGGCUUGGUUGUGCCAGUGAAUUAGCGCAAACCGCAUGUUAGAUUCGUUGAUAACAUGCCACCGCCUCCCAUCCUUGUGCCGCCCACAUA
.(((..((((((((..........)))).))))((((((((..........))))))))....))).........((((.....)))).. ( -23.60)
>DroAna_CAF1 35122 80 + 1
UGGCUUGGUUGUGCCAGUGAAUUAGCACAAACCGCAUGUUAGAUUUGUUGAUAACAUGCCACCACCGCGACUCC--------CCCACU--
(((...(((((((...(((......))).....((((((((..........))))))))......)))))))..--------.)))..-- ( -20.60)
>DroPer_CAF1 38304 71 + 1
UGGCUUGGUUCUGCGAGUGAAUUAGCACAAGCCGCAUGUUAGAUUUGUUGAUAACAUGCCACC-------------------CCAACAUC
.((((((....(((..........)))))))))((((((((..........))))))))....-------------------........ ( -19.40)
>consensus
UGGCUUGGUUGUGCCAGUGAAUUAGCACAAACCGCAUGUUAGAUUCGUUGAUAACAUGCCACCACC_CCCAUCC________CCCACAUC
......((((((((..........)))).))))((((((((..........))))))))............................... (-16.38 = -16.35 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,622,689 – 14,622,779
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 79.38
Mean single sequence MFE -24.88
Consensus MFE -19.50
Energy contribution -20.50
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.78
SVM decision value 0.79
SVM RNA-class probability 0.850943
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14622689 90 - 27905053
GAUGUGGGCGGACCAAGGAUGGGCGUUGGUGGCAUGUUAUCAACGAAUCUAACAUGCGGUUUGUGCUAAUUCACUGGCACAACCAAGCCA
......(((..(((((.(.....).))))).((((((((..........))))))))((((.((((((......))))))))))..))). ( -32.30)
>DroPse_CAF1 35650 72 - 1
GAUGUUGG------------------GGGUGGCAUGUUAUCAACAAAUCUAACAUGCGGCUUGUGCUAAUUCACUCGCAGAACCAAGCCA
....(((.------------------(((((((((((((..........))))))))(((....)))....))))).))).......... ( -20.60)
>DroEre_CAF1 36275 80 - 1
GCUGU----------AGGAUGGGAGGUGCUGGCAUGUUAUCAACGAAUCUAACAUGCGGUUUGUGCUAAUUCACUGGCACAACCGAGCCA
.....----------.........(((....((((((((..........))))))))((((.((((((......))))))))))..))). ( -24.80)
>DroYak_CAF1 38091 90 - 1
UAUGUGGGCGGCACAAGGAUGGGAGGCGGUGGCAUGUUAUCAACGAAUCUAACAUGCGGUUUGCGCUAAUUCACUGGCACAACCAAGCCA
..((((.....)))).........(((....((((((((..........))))))))((((.(.((((......)))).)))))..))). ( -26.00)
>DroAna_CAF1 35122 80 - 1
--AGUGGG--------GGAGUCGCGGUGGUGGCAUGUUAUCAACAAAUCUAACAUGCGGUUUGUGCUAAUUCACUGGCACAACCAAGCCA
--.((((.--------....))))(((....((((((((..........))))))))((((.((((((......))))))))))..))). ( -26.90)
>DroPer_CAF1 38304 71 - 1
GAUGUUGG-------------------GGUGGCAUGUUAUCAACAAAUCUAACAUGCGGCUUGUGCUAAUUCACUCGCAGAACCAAGCCA
........-------------------....((((((((..........))))))))(((((((((..........)))....)))))). ( -18.70)
>consensus
GAUGUGGG________GGAUGGG_GGUGGUGGCAUGUUAUCAACAAAUCUAACAUGCGGUUUGUGCUAAUUCACUGGCACAACCAAGCCA
...........................(((.((((((((..........))))))))((.((((((((......))))))))))..))). (-19.50 = -20.50 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:34 2006