Locus 786

Sequence ID 2L_DroMel_CAF1
Location 2,248,795 – 2,248,925
Length 130
Max. P 0.981951
window1285 window1286 window1287

overview

Window 5

Location 2,248,795 – 2,248,885
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -26.26
Consensus MFE -19.90
Energy contribution -20.10
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -3.18
Structure conservation index 0.76
SVM decision value 1.66
SVM RNA-class probability 0.970579
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2248795 90 + 22407834
UGGUGGUCGAAAAAGUUAACGUACACGUUUGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGCUAACUUUUUUUUUUUUUAGCACU
.((((.(.((((((((((..(((((((..((((.....(((......)))......))))))))))))))))))))).......).)))) ( -23.20)
>DroSec_CAF1 9021 85 + 1
UGGUGGUCGAAAAAGUUAACGUACACAUUCGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGAUAACUUUU-----UUUUAGCACU
.((((.(.((((((((((...(((((((.(((......(((......))).....))).))))))).))))))))-----))..).)))) ( -24.40)
>DroSim_CAF1 9284 85 + 1
UGGUGGUCGAAAAAGUUAACGUACACAUUCGCAAAUAUGCUGUUGUAAGCUAAUAGUGCAUGUGUGCUAACUUUU-----UUUUAGCACU
.((((.(.((((((((((..((((((((.(((......(((......))).....))).))))))))))))))))-----))..).)))) ( -26.60)
>DroEre_CAF1 9077 85 + 1
UGGUGGUCGAAAAAGUUAACGUGCACGUUCGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGCUAACUUUU-----UUGUAGCACU
.((((.((((((((((((..(..(((((.(((......(((......))).....))).)))))..)))))))))-----))).).)))) ( -29.10)
>DroYak_CAF1 9367 85 + 1
UGGUGGUCGAAAAAGUUAACGUACACGUUCGCAAAUAUGCUGUCGUGCGCUAAUAGUGCAUGUGUGCUAACUUUU-----UUUCAGCACU
.((((.(.((((((((((..((((((....(((....)))....((((((.....))))))))))))))))))))-----))..).)))) ( -28.00)
>consensus
UGGUGGUCGAAAAAGUUAACGUACACGUUCGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGCUAACUUUU_____UUUUAGCACU
.((((.(.((((((((((..((((((((..(((.....(((......)))......))))))))))))))))))......))).).)))) (-19.90 = -20.10 +   0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,248,795 – 2,248,885
Length 90
Sequences 5
Columns 90
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -19.08
Consensus MFE -14.94
Energy contribution -14.58
Covariance contribution -0.36
Combinations/Pair 1.16
Mean z-score -2.44
Structure conservation index 0.78
SVM decision value 1.50
SVM RNA-class probability 0.959727
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2248795 90 - 22407834
AGUGCUAAAAAAAAAAAAAGUUAGCACACAUGCACUAUUAGCUUACGACAGCAUAUUUGCAAACGUGUACGUUAACUUUUUCGACCACCA
..............(((((((((((((((.((((......(((......))).....))))...))))..)))))))))))......... ( -16.90)
>DroSec_CAF1 9021 85 - 1
AGUGCUAAAA-----AAAAGUUAUCACACAUGCACUAUUAGCUUACGACAGCAUAUUUGCGAAUGUGUACGUUAACUUUUUCGACCACCA
.(((.....(-----((((((((..((((((((.......))........(((....)))..))))))....)))))))))....))).. ( -16.80)
>DroSim_CAF1 9284 85 - 1
AGUGCUAAAA-----AAAAGUUAGCACACAUGCACUAUUAGCUUACAACAGCAUAUUUGCGAAUGUGUACGUUAACUUUUUCGACCACCA
.(((.....(-----((((((((((((((((((.......))........(((....)))..))))))..)))))))))))....))).. ( -20.30)
>DroEre_CAF1 9077 85 - 1
AGUGCUACAA-----AAAAGUUAGCACACAUGCACUAUUAGCUUACGACAGCAUAUUUGCGAACGUGCACGUUAACUUUUUCGACCACCA
.(((...(.(-----((((((((((......((.......)).((((...(((....)))...))))...))))))))))).)..))).. ( -18.60)
>DroYak_CAF1 9367 85 - 1
AGUGCUGAAA-----AAAAGUUAGCACACAUGCACUAUUAGCGCACGACAGCAUAUUUGCGAACGUGUACGUUAACUUUUUCGACCACCA
.(((.....(-----((((((((((......((.......))(((((...(((....)))...)))))..)))))))))))....))).. ( -22.80)
>consensus
AGUGCUAAAA_____AAAAGUUAGCACACAUGCACUAUUAGCUUACGACAGCAUAUUUGCGAACGUGUACGUUAACUUUUUCGACCACCA
...............((((((((((......((.......)).((((...(((....)))...))))...)))))))))).......... (-14.94 = -14.58 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 2,248,805 – 2,248,925
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.79
Mean single sequence MFE -32.56
Consensus MFE -27.56
Energy contribution -27.90
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -1.99
Structure conservation index 0.85
SVM decision value 1.90
SVM RNA-class probability 0.981951
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2248805 120 + 22407834
AAAAGUUAACGUACACGUUUGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGCUAACUUUUUUUUUUUUUAGCACUGUUUGGGAUUCUGUGAGCGGAGUAAACAAACGAGGUAGCU
((((((((..(((((((..((((.....(((......)))......))))))))))))))))))).........(((((((((((..((((((....))))))...)))))..))).))) ( -34.50)
>DroSec_CAF1 9031 115 + 1
AAAAGUUAACGUACACAUUCGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGAUAACUUUU-----UUUUAGCACUGUGUGGGAUUCUGUGAGCGGAGUAAACAAACGAGGUAGCU
((((((((...(((((((.(((......(((......))).....))).))))))).))))))))-----....((((((.(((...((((((....))))))..))).....))).))) ( -30.30)
>DroSim_CAF1 9294 115 + 1
AAAAGUUAACGUACACAUUCGCAAAUAUGCUGUUGUAAGCUAAUAGUGCAUGUGUGCUAACUUUU-----UUUUAGCACUGUGUGGGAUUCUGUGAGCGGAGUAAACAAACGAGAUAGCU
((((((((..((((((((.(((......(((......))).....))).))))))))))))))))-----....(((.((((.((..((((((....))))))...)).)).))...))) ( -29.80)
>DroEre_CAF1 9087 115 + 1
AAAAGUUAACGUGCACGUUCGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGCUAACUUUU-----UUGUAGCACUGUACGGCAUUCUGUGAGCGGAGUAAACAAACGAGUUGGCU
...(((((((.(((.((((((((...((((((((....((.......))....((((((.(....-----..))))))).).)))))))..))))))))..))).........))))))) ( -35.30)
>DroYak_CAF1 9377 115 + 1
AAAAGUUAACGUACACGUUCGCAAAUAUGCUGUCGUGCGCUAAUAGUGCAUGUGUGCUAACUUUU-----UUUCAGCACUGUAUGGGAUUCUGUGAACGGAGUAAACAAAUGAGUUGGCU
...(((((((.(((.((((((((..(((((...(((((((.....))))))).(((((.......-----....))))).)))))......))))))))..))).........))))))) ( -32.90)
>consensus
AAAAGUUAACGUACACGUUCGCAAAUAUGCUGUCGUAAGCUAAUAGUGCAUGUGUGCUAACUUUU_____UUUUAGCACUGUAUGGGAUUCUGUGAGCGGAGUAAACAAACGAGGUAGCU
((((((((..((((((((..(((.....(((......)))......))))))))))))))))))).........(((.((((.((..((((((....))))))...)).)).))...))) (-27.56 = -27.90 +   0.34)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:36 2006