Locus 6280

Sequence ID 3R_DroMel_CAF1
Location 16,389,903 – 16,390,023
Length 120
Max. P 0.694349
window10241 window10242

overview

Window 1

Location 16,389,903 – 16,390,023
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 79.26
Mean single sequence MFE -28.33
Consensus MFE -18.50
Energy contribution -19.61
Covariance contribution 1.11
Combinations/Pair 1.04
Mean z-score -1.74
Structure conservation index 0.65
SVM decision value 0.34
SVM RNA-class probability 0.694349
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16389903 120 + 27905053
ACUAUCUAAAGACUGCGAUAAACAACACCUGGAAGCCCAAAAACAAAAAGAAAAAAAGAAAAGAGUCUCUCUCUCAUUGCGCUUCACCUUGGGGAGUUUCCACCGAGAAUGUCGCGCAUC
..............((((((...........(((((.(((...(.....)...........((((.....))))..))).)))))..(((((((.....)).)))))..))))))..... ( -26.00)
>DroSec_CAF1 11037 112 + 1
ACUAUCUAAAGACUGCGAUAAACAAUACCUGGUAGCCCAAAAAACA----AAAAACGAAAAAGAGUCUCUCU----UUGGGCUUCACCUUGGGGAGUUUCCACCGAGAAUGUCGCGCAUC
..............((((((.........(((.(((((......(.----......)..((((((...))))----)))))))))).(((((((.....)).)))))..))))))..... ( -27.90)
>DroEre_CAF1 11573 104 + 1
ACUGUGUUAAGAUUGCGAUAAACAACACUUGGCAGCCCCAUA-----------AAAGAAAAGGAGUCUCUU-----UUGGGGUUAACCUUGGGGAGUUUCCGCCGAGAAUGUCGCGAAUC
............((((((((..........(..(((((((.(-----------(.(((.......))).))-----.)))))))..)(((((((.....)).)))))..))))))))... ( -31.10)
>consensus
ACUAUCUAAAGACUGCGAUAAACAACACCUGGAAGCCCAAAAA__A____AAAAAAGAAAAAGAGUCUCUCU____UUGGGCUUCACCUUGGGGAGUUUCCACCGAGAAUGUCGCGCAUC
..............((((((.............(((((((.....................((((...))))....)))))))....(((((((.....)).)))))..))))))..... (-18.50 = -19.61 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,389,903 – 16,390,023
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 79.26
Mean single sequence MFE -32.27
Consensus MFE -19.28
Energy contribution -20.28
Covariance contribution 1.01
Combinations/Pair 1.16
Mean z-score -1.80
Structure conservation index 0.60
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16389903 120 - 27905053
GAUGCGCGACAUUCUCGGUGGAAACUCCCCAAGGUGAAGCGCAAUGAGAGAGAGACUCUUUUCUUUUUUUCUUUUUGUUUUUGGGCUUCCAGGUGUUGUUUAUCGCAGUCUUUAGAUAGU
..(((((..(((.((.((.((.....)))).)))))..)))))..((((((((((......))))))))))...((((((..(((((....((((.....))))..)))))..)))))). ( -34.60)
>DroSec_CAF1 11037 112 - 1
GAUGCGCGACAUUCUCGGUGGAAACUCCCCAAGGUGAAGCCCAA----AGAGAGACUCUUUUUCGUUUUU----UGUUUUUUGGGCUACCAGGUAUUGUUUAUCGCAGUCUUUAGAUAGU
(((..((((.......((.((.....))))..(((..(((((((----((((((((........))))).----...)))))))))))))............)))).))).......... ( -30.20)
>DroEre_CAF1 11573 104 - 1
GAUUCGCGACAUUCUCGGCGGAAACUCCCCAAGGUUAACCCCAA-----AAGAGACUCCUUUUCUUU-----------UAUGGGGCUGCCAAGUGUUGUUUAUCGCAAUCUUAACACAGU
(((..((((((((...((.((.....))))..(((...(((((.-----((((((.......)))))-----------).)))))..))).))))))))..)))................ ( -32.00)
>consensus
GAUGCGCGACAUUCUCGGUGGAAACUCCCCAAGGUGAAGCCCAA____AGAGAGACUCUUUUUCUUUUUU____U__UUUUUGGGCUACCAGGUGUUGUUUAUCGCAGUCUUUAGAUAGU
((((.((((((((...((.((.....))))..(((..(((((((.....(((((....))))).................)))))))))).)))))))).))))................ (-19.28 = -20.28 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:31 2006