Locus 4936

Sequence ID 2L_DroMel_CAF1
Location 14,140,139 – 14,140,283
Length 144
Max. P 0.846996
window7832 window7833

overview

Window 2

Location 14,140,139 – 14,140,247
Length 108
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 84.77
Mean single sequence MFE -38.33
Consensus MFE -31.51
Energy contribution -32.27
Covariance contribution 0.75
Combinations/Pair 1.21
Mean z-score -2.03
Structure conservation index 0.82
SVM decision value 0.55
SVM RNA-class probability 0.777271
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14140139 108 - 22407834
ACUUCAGUCUUUGGACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGAGCACUCAAGUGGGCGAAGUCCUGGCCAGAAGU
(((((((((....))))...(((..((..(((((((.......((.((.(((((....))))).)).))..(((((....))))))))))))...))..))).))))) ( -45.10)
>DroSec_CAF1 228954 101 - 1
ACUUCAG-------ACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGAGCACUCAAGUGGGCGAAGUCCUGGCCAGAAGU
.......-------(((((.(((..((..(((((((.......((.((.(((((....))))).)).))..(((((....))))))))))))...))..))).))))) ( -41.50)
>DroSim_CAF1 225415 101 - 1
ACUUCAG-------ACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGAGCACUCAAGUGGGCGAAGUCCUGGCCAGAAGU
.......-------(((((.(((..((..(((((((.......((.((.(((((....))))).)).))..(((((....))))))))))))...))..))).))))) ( -41.50)
>DroYak_CAF1 242921 107 - 1
ACUCC-GACUUUGGACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGAGCACUCAAGUGGGCGAAGUCCUGGCCAGAAGU
..(((-(....))))((((.(((..((..(((((((.......((.((.(((((....))))).)).))..(((((....))))))))))))...))..))).)))). ( -42.40)
>DroAna_CAF1 224850 98 - 1
----------UUGGGGUGGGGAAUGGGUCUCGGCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGUGUUUUGAGCACUCAAGUGGGCGAAGUCCUGGCCAGGACU
----------....(((.((((.....)))).)))....((..((.((.(((((....))))).))(((((.....)))))...))..))..((((((....)))))) ( -29.00)
>DroPer_CAF1 291719 105 - 1
G--UG-GGUUCUGGGUCUUGGAUUGGGUGUCGCUCGAAAGCACGAGAAGAUGAAUCGUUUCGUUUUGGCGUUUUGAGCACUCGAGUGGGCGAAGUCGUGGGGAGGACU
.--..-((((((...(((((((((..((.((((((((..(((((..((((((((....))))))))..))).....))..))))))))))..)))).))))))))))) ( -30.50)
>consensus
ACUUC_G___UUGGACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGAGCACUCAAGUGGGCGAAGUCCUGGCCAGAAGU
..............(((((.(((((((..(((((((.......((.((.(((((....))))).)).))..(((((....))))))))))))...))))))).))))) (-31.51 = -32.27 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,140,171 – 14,140,283
Length 112
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 79.38
Mean single sequence MFE -40.72
Consensus MFE -24.12
Energy contribution -24.25
Covariance contribution 0.13
Combinations/Pair 1.25
Mean z-score -2.09
Structure conservation index 0.59
SVM decision value 0.77
SVM RNA-class probability 0.846996
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14140171 112 - 22407834
--UUAGGAUGGUAGGGCCCAGGGUCCUGGGUCCUGCGGACUUCAGUCUUUGGACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGA
--...((...(((((((((((....))))))))))).(((((((((((.........)))))))).)))..)).(((((..((.((.(((((....))))).)).))))))).. ( -46.00)
>DroSec_CAF1 228986 105 - 1
--UUAGGAUGGUAGGGCCCAGGGUCCUGGGUCCUGCGGACUUCAG-------ACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGA
--(((((((.(((((((((((....)))))))))))........(-------..(((((((........)))))))..)..((.((.(((((....))))).)).))))))))) ( -43.70)
>DroSim_CAF1 225447 105 - 1
--UUAGGAUGGUAGGGCCCAGGGUCCUGGGUCCUGCGGACUUCAG-------ACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGA
--(((((((.(((((((((((....)))))))))))........(-------..(((((((........)))))))..)..((.((.(((((....))))).)).))))))))) ( -43.70)
>DroEre_CAF1 231879 104 - 1
--UUGGGAUGGUUGGG-------CCCAGAGUCCUGCGGACUCC-GACUUUGGACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGA
--(((((.(((((.((-------((((((((((.((((...))-).)...)))))))))))).))..))))))))......((.((.(((((....))))).)).))....... ( -41.90)
>DroYak_CAF1 242953 111 - 1
--AUAGGAUGGUUGGGCUGAGGGCCGAGGGUCCUGCGGACUCC-GACUUUGGACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGA
--.((((((((((((((((((((((...)))))).))).).))-))))...(..(((((((........)))))))..)..((.((.(((((....))))).)).)))))))). ( -38.90)
>DroPer_CAF1 291751 96 - 1
CUGUGCUGUGGC------------U---GGUGCUUUGGG--UG-GGUUCUGGGUCUUGGAUUGGGUGUCGCUCGAAAGCACGAGAAGAUGAAUCGUUUCGUUUUGGCGUUUUGA
....(((....(------------(---.((((((((((--((-(...((.((((...)))).))..)))))).))))))).))((((((((....)))))))))))....... ( -30.10)
>consensus
__UUAGGAUGGUAGGGCCCAGGGUCCUGGGUCCUGCGGACUUC_G_CUUUGGACUUUGGGCUGGGUGUCGCCCGAAAGCAAGCGAAGAUGAAUCGUUUCGUGUUGGCGUUUUGA
...((((((..((((((.....)))))).))))))...................(((((((........))))))).....((.((.(((((....))))).)).))....... (-24.12 = -24.25 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:29 2006