Locus 7043

Sequence ID 3L_DroMel_CAF1
Location 19,080,697 – 19,080,815
Length 118
Max. P 0.957114
window11422 window11423

overview

Window 2

Location 19,080,697 – 19,080,798
Length 101
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 66.54
Mean single sequence MFE -22.86
Consensus MFE -8.44
Energy contribution -8.88
Covariance contribution 0.44
Combinations/Pair 1.44
Mean z-score -2.00
Structure conservation index 0.37
SVM decision value 0.68
SVM RNA-class probability 0.821613
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19080697 101 + 23771897
UCUA-------CCCACCA-AUGGGAUU----CCACCAUAGAGUCUAGUUGGCCUAGAUGAGGAAAUUCCACUAUCACAAAGGCCGCAACAACUUUA------ACACCAGAAGAAAAUCC
(((.-------((((...-.))))...----......((((((.....((((((.((((.((.....))..))))....)))))).....))))))------.....)))......... ( -20.50)
>DroSec_CAF1 5685 100 + 1
UCUA-------CCAACCA-AUGGGAUU----CCACCAUAGAGUCUAGUUGGCCUAGAUGAGGAAAU-CCUCCAUUACAAAGGCCGAAACAACUUUA------ACACCAGAAGGAAAUCC
....-------....((.-.(((....----...)))((((((....(((((((.(((((((....-))).))))....)))))))....))))))------.........))...... ( -25.10)
>DroSim_CAF1 5568 91 + 1
UCUA-------CCAACCA-AUGGG--------------AGAGUCUAGUUGGCCUAGAUGAGGAAAUUCCUCCAUUACAGAGGCCGAAACAACUUUA------ACACCAGAAGGAAAUCC
....-------....((.-.(((.--------------(((((....(((((((.(((((((.....))).))))....)))))))....))))).------...)))...))...... ( -26.40)
>DroEre_CAF1 6196 97 + 1
UC-----------AGCUA-ACGUGGAU----CCACCAAAAAGUAUGCUUGGCCUAUAUGAGGAAGUUCCGCCAUUGCAAGGGCCACUACAACUUUA------ACACUAAAGGAAAAUCC
..-----------(((..-((.(((..----...)))....))..)))((((((......((.....))((....))..))))))......(((((------....)))))........ ( -19.00)
>DroAna_CAF1 6583 111 + 1
UCCAAGUCCUUGCCACUAAAAAUAGAUCGACUCACCCU--ACUCUGUCCAUCCUAGAUCAGGAAAUUGCUCUC------GGGCAGAGUCAACUUUUAUGGCUACACCAUAAGAAAAUCC
............................(((((..(((--..((((.......))))..)))....((((...------.)))))))))...((((((((.....))))))))...... ( -23.30)
>consensus
UCUA_______CCAACCA_AUGGGAAU____CCACCAUAGAGUCUAGUUGGCCUAGAUGAGGAAAUUCCUCCAUUACAAAGGCCGAAACAACUUUA______ACACCAGAAGAAAAUCC
......................................(((((.....((((((...(((((........)).)))...)))))).....)))))........................ ( -8.44 =  -8.88 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,080,725 – 19,080,815
Length 90
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 79.76
Mean single sequence MFE -20.28
Consensus MFE -9.66
Energy contribution -9.94
Covariance contribution 0.28
Combinations/Pair 1.42
Mean z-score -2.60
Structure conservation index 0.48
SVM decision value 1.47
SVM RNA-class probability 0.957114
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19080725 90 + 23771897
AGUCUAGUUGGCCUAGAUGAGGAAAUUCCACUAUCACAAAGGCCGCAACAACUUUA------ACACCAGAAGAAAAUCCAGACAAAAGCAAUUUAA
.((((.((.(((((.((((.((.....))..))))....))))))).....((((.------......)))).......))))............. ( -16.40)
>DroSec_CAF1 5713 89 + 1
AGUCUAGUUGGCCUAGAUGAGGAAAU-CCUCCAUUACAAAGGCCGAAACAACUUUA------ACACCAGAAGGAAAUCCAGACAAAAGCAAUUUAA
.((((..(((((((.(((((((....-))).))))....)))))))..........------.........((....))))))............. ( -21.80)
>DroSim_CAF1 5586 90 + 1
AGUCUAGUUGGCCUAGAUGAGGAAAUUCCUCCAUUACAGAGGCCGAAACAACUUUA------ACACCAGAAGGAAAUCCAGACAAAAGCAAUUUAA
.((((..(((((((.(((((((.....))).))))....)))))))..........------.........((....))))))............. ( -22.90)
>DroEre_CAF1 6220 90 + 1
AGUAUGCUUGGCCUAUAUGAGGAAGUUCCGCCAUUGCAAGGGCCACUACAACUUUA------ACACUAAAGGAAAAUCCAGACAAAAGCAAUUUAA
....((((((((((......((.....))((....))..))))).......(((((------....)))))..............)))))...... ( -18.90)
>DroAna_CAF1 6621 90 + 1
ACUCUGUCCAUCCUAGAUCAGGAAAUUGCUCUC------GGGCAGAGUCAACUUUUAUGGCUACACCAUAAGAAAAUCCAGACAAAAGCAAUUUAA
(((((((((.((((.....))))....(....)------)))))))))....((((((((.....))))))))....................... ( -21.40)
>consensus
AGUCUAGUUGGCCUAGAUGAGGAAAUUCCUCCAUUACAAAGGCCGAAACAACUUUA______ACACCAGAAGAAAAUCCAGACAAAAGCAAUUUAA
.((((...((((((...(((((........)).)))...))))))......((((.............)))).......))))............. ( -9.66 =  -9.94 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:17 2006