Locus 7569

Sequence ID 2L_DroMel_CAF1
Location 20,945,334 – 20,945,494
Length 160
Max. P 0.783911
window12174 window12175

overview

Window 4

Location 20,945,334 – 20,945,454
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 91.11
Mean single sequence MFE -42.93
Consensus MFE -37.64
Energy contribution -39.83
Covariance contribution 2.20
Combinations/Pair 1.03
Mean z-score -2.10
Structure conservation index 0.88
SVM decision value 0.57
SVM RNA-class probability 0.783911
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20945334 120 + 22407834
ACAGGCCACCGCCGACGGGCAGACAAUGGUCUCGCUCUGAAGCGCCAAAAGCAACGGCCGUAGCAACGGCCAAUAAUGAUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGU
....((((..(((....)))((((....))))..(((((..(.(((...(((...((((((....)))))).....((((((...))))))........))).))).)..))))).)))) ( -44.60)
>DroSec_CAF1 31549 108 + 1
ACAGGCCACCGCCGACGGGCGGACAAUGGUCUCGCUCCGAAGCGCCAAAAGCAA------------CGGCCAACAAUGCUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGU
....((((.(((((.(((((((((....))).))).)))..((.......))..------------)))).((((((((......))))....))))...((((.....)))).).)))) ( -34.80)
>DroSim_CAF1 28620 120 + 1
ACAGGCCACCGCCGACGGGCGGACAAUGGUCUCGCUCCGAAGCGCCAAAAGCAACGGCCGUAGCAACGGCCAACAAUGAUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGU
....(((.(((((....)))))......((((((((....)))(((...(((...((((((....))))))((((.((((((...))))))..))))..))).)))......)))))))) ( -49.40)
>consensus
ACAGGCCACCGCCGACGGGCGGACAAUGGUCUCGCUCCGAAGCGCCAAAAGCAACGGCCGUAGCAACGGCCAACAAUGAUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGU
....(((.(((((....)))))......((((((((....)))(((...(((...((((((....))))))((((.((((((...))))))..))))..))).)))......)))))))) (-37.64 = -39.83 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,945,374 – 20,945,494
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 89.44
Mean single sequence MFE -38.10
Consensus MFE -30.17
Energy contribution -32.37
Covariance contribution 2.20
Combinations/Pair 1.03
Mean z-score -2.32
Structure conservation index 0.79
SVM decision value 0.38
SVM RNA-class probability 0.712700
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20945374 120 + 22407834
AGCGCCAAAAGCAACGGCCGUAGCAACGGCCAAUAAUGAUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGUCGCGUGAGUGAGCCGAUGGCUGGGCACGCUAUUUAUAAAA
((((((...(((...((((((....)))))).....((((((...))))))........))).)))...((((..((((((((....)))).)).))..))))....))).......... ( -46.40)
>DroSec_CAF1 31589 108 + 1
AGCGCCAAAAGCAA------------CGGCCAACAAUGCUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGUCGCGUGAAUGAGACAAUGGCUGGUCAUGCUAUUUAUAAAA
((((((...(((..------------.(((...(.((((......)))).)...)))..))).)))..(((((..((.(((.((....)).))).))..)))))...))).......... ( -26.20)
>DroSim_CAF1 28660 120 + 1
AGCGCCAAAAGCAACGGCCGUAGCAACGGCCAACAAUGAUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGUCGCGUGAAUGAGACAAUGGCUGGUCACGCUAUUUAUAAAA
((((((...(((...((((((....))))))((((.((((((...))))))..))))..))).)))..(((((..((.(((.((....)).))).))..)))))...))).......... ( -41.70)
>consensus
AGCGCCAAAAGCAACGGCCGUAGCAACGGCCAACAAUGAUGCACUGCAUCGAAUGUUAAGCUGGGCACACCAGAGAUGGUCGCGUGAAUGAGACAAUGGCUGGUCACGCUAUUUAUAAAA
((((((...(((...((((((....))))))((((.((((((...))))))..))))..))).)))...((((..((.(((.((....)).))).))..))))....))).......... (-30.17 = -32.37 +   2.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:11 2006