Locus 3986

Sequence ID 3R_DroMel_CAF1
Location 10,818,202 – 10,818,293
Length 91
Max. P 0.941461
window6393 window6394

overview

Window 3

Location 10,818,202 – 10,818,293
Length 91
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 79.95
Mean single sequence MFE -38.02
Consensus MFE -24.05
Energy contribution -23.42
Covariance contribution -0.63
Combinations/Pair 1.31
Mean z-score -2.60
Structure conservation index 0.63
SVM decision value 1.32
SVM RNA-class probability 0.941461
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10818202 91 + 27905053
----GGCCAUGUUUGUGGCUUUUGGCAUUGUUUGCCGGCUGACAACAGUCAGCAAAAGUUUGCGCUGCCAGCGGUCGAGUGUGACU--CACUGCCUC-----------
----((((((....))))))..(((((.(((..((..((((((....))))))....))..))).)))))(((((.(((.....))--))))))...----------- ( -37.40)
>DroPse_CAF1 111783 98 + 1
----GGCCAUGUUUGUGGCUUUUGGUAUUGUUUGCCAGCUGACAACAGUCGGCAAAAGUUUAUGGCACCAGCGCUUCGGUGCGGCUGCCUCUGCCUC------AGCCU
----((((((....))))))...((((...((((((.((((....)))).)))))).......((((((.((((....)))))).))))..))))..------..... ( -39.60)
>DroEre_CAF1 90156 89 + 1
----GGCCAUGUUUGUGGCUUUUGGCAUUGUUUGCCGGCUGACAACAGUCGGCAAAAGUUGGCGCUGCCAGCGGUCGAGUGUGACU--C--UACCUC-----------
----((((((....))))))..........(((((((((((....))))))))))).((((((...))))))(((.(((.....))--)--.)))..----------- ( -39.00)
>DroWil_CAF1 101255 98 + 1
CUAUGCUCAUGUUUGUGGCUUCUGCCAUUGUUUGCCAGCUGACAACAGUCAGCAAAAGUUUAUGCUGCCAGCGGUUGGGUU-GGUUGGUUUUGCCUC------AG---
..............(((((....))))).((..((((((((((....)))))).............((((((......)))-)))))))...))...------..--- ( -28.20)
>DroYak_CAF1 92297 100 + 1
----GGCCAUGUUUGUGGCUUUUGGCAUUGUUUGCCGGCUGACAACAGUCGGCAAAAGUUUGCGCUGCCAGCGGUCGAGUGUGACU--C--UGCCUCUGCCUCAGCCU
----((((((....))))))....(((...(((((((((((....)))))))))))....)))((((.(((.(((.(((.....))--)--.))).)))...)))).. ( -44.30)
>DroPer_CAF1 112118 98 + 1
----GGCCAUGUUUGUGGCUUUUGGUAUUGUUUGCCAGCUGACAACAGUCGGCAAAAGUUUAUGGCACCAGCGCUUCGGUGCGGCUGCCUCUGCCUC------AGCCU
----((((((....))))))...((((...((((((.((((....)))).)))))).......((((((.((((....)))))).))))..))))..------..... ( -39.60)
>consensus
____GGCCAUGUUUGUGGCUUUUGGCAUUGUUUGCCAGCUGACAACAGUCGGCAAAAGUUUACGCUGCCAGCGGUCGAGUGUGACU__CUCUGCCUC______AG___
....((((((....)))))).((((((.(((..((..((((((....))))))....))..))).)))))).....(((.(((........))))))........... (-24.05 = -23.42 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 10,818,202 – 10,818,293
Length 91
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 79.95
Mean single sequence MFE -31.64
Consensus MFE -18.96
Energy contribution -18.13
Covariance contribution -0.83
Combinations/Pair 1.27
Mean z-score -2.22
Structure conservation index 0.60
SVM decision value 0.83
SVM RNA-class probability 0.861953
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10818202 91 - 27905053
-----------GAGGCAGUG--AGUCACACUCGACCGCUGGCAGCGCAAACUUUUGCUGACUGUUGUCAGCCGGCAAACAAUGCCAAAAGCCACAAACAUGGCC----
-----------..((((.((--.(((......))).((((((...((((....))))((((....))))))))))...)).))))....((((......)))).---- ( -33.30)
>DroPse_CAF1 111783 98 - 1
AGGCU------GAGGCAGAGGCAGCCGCACCGAAGCGCUGGUGCCAUAAACUUUUGCCGACUGUUGUCAGCUGGCAAACAAUACCAAAAGCCACAAACAUGGCC----
.((((------(.........)))))((((((......))))))........(((((((.(((....))).)))))))...........((((......)))).---- ( -32.00)
>DroEre_CAF1 90156 89 - 1
-----------GAGGUA--G--AGUCACACUCGACCGCUGGCAGCGCCAACUUUUGCCGACUGUUGUCAGCCGGCAAACAAUGCCAAAAGCCACAAACAUGGCC----
-----------..(((.--(--((.....))).)))((((((((((...............)))))))))).((((.....))))....((((......)))).---- ( -29.66)
>DroWil_CAF1 101255 98 - 1
---CU------GAGGCAAAACCAACC-AACCCAACCGCUGGCAGCAUAAACUUUUGCUGACUGUUGUCAGCUGGCAAACAAUGGCAGAAGCCACAAACAUGAGCAUAG
---..------...((..........-.........((..((((((........))))(((....))).))..))......((((....)))).........)).... ( -24.00)
>DroYak_CAF1 92297 100 - 1
AGGCUGAGGCAGAGGCA--G--AGUCACACUCGACCGCUGGCAGCGCAAACUUUUGCCGACUGUUGUCAGCCGGCAAACAAUGCCAAAAGCCACAAACAUGGCC----
.(((((((((((.((((--(--((((......)))(((.....)))......))))))..))))).))))))((((.....))))....((((......)))).---- ( -38.90)
>DroPer_CAF1 112118 98 - 1
AGGCU------GAGGCAGAGGCAGCCGCACCGAAGCGCUGGUGCCAUAAACUUUUGCCGACUGUUGUCAGCUGGCAAACAAUACCAAAAGCCACAAACAUGGCC----
.((((------(.........)))))((((((......))))))........(((((((.(((....))).)))))))...........((((......)))).---- ( -32.00)
>consensus
___CU______GAGGCAGAG__AGCCACACCCAACCGCUGGCAGCACAAACUUUUGCCGACUGUUGUCAGCCGGCAAACAAUGCCAAAAGCCACAAACAUGGCC____
.............(((.......)))............(((((.........(((((((.(((....))).)))))))...)))))...((((......))))..... (-18.96 = -18.13 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:16 2006