Locus 3774

Sequence ID 3R_DroMel_CAF1
Location 10,237,314 – 10,237,408
Length 94
Max. P 0.994776
window6044 window6045

overview

Window 4

Location 10,237,314 – 10,237,408
Length 94
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 95.42
Mean single sequence MFE -21.51
Consensus MFE -20.03
Energy contribution -19.91
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.81
Structure conservation index 0.93
SVM decision value 2.51
SVM RNA-class probability 0.994776
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10237314 94 + 27905053
-----CCGAAAGCAAUCAAUAUGAAAUGGCUGGGCUUUUAUAAAAACAUGAAUAUAAUGCUCAGCGUUUAGGCAUUUCCAGUUAACAUUGCAGCCACAA
-----......(((((.(((..(((((((((((((..(((((..........))))).))))))).......))))))..)))...)))))........ ( -18.71)
>DroSec_CAF1 95239 94 + 1
-----CCGAAAGCAAUCAAUAUGAAAUGGCUGGGCUUUUAUAAAAACAUGAAUAUAAUGCCCAGCGUUUAGGCAUUUCCAGUUAACAUUACAGCCACAA
-----....((((..((.....))....(((((((..(((((..........))))).))))))))))).(((...................))).... ( -19.71)
>DroSim_CAF1 93676 94 + 1
-----CCGAAAGCAAUCAAUAUGAAAUGGCUGGGCUUUUAUAAAAACAUGAAUAUAAUGCCCAGCGUUUAGGCAUUUCCAGUUAACAUUGCAGCCACAA
-----......(((((.(((..(((((((((((((..(((((..........))))).))))))).......))))))..)))...)))))........ ( -21.71)
>DroEre_CAF1 96233 93 + 1
-----CCGAAAGCAAUCAAUAUGGAAUGGCUGGGCUUUUAUAAGAACAUGAAUAUAAUGCCCAGCGUUUAGGCAUUUCCAGUUAACAUUGCAGCC-CAA
-----......(((((.....(((((..(((((((..(((((..........))))).)))))))((....))..)))))......)))))....-... ( -25.60)
>DroYak_CAF1 101582 99 + 1
CGUUCCCGAAAGCAAUCAAUAUGAAAUGGCUGGGCUUUUAUAAAAACAUGAAUAUAAUGCCCAGCGUUUAGGCAUUUCCAGUUAACAUUGCGGCCACAA
.((..((....(((((.(((..(((((((((((((..(((((..........))))).))))))).......))))))..)))...)))))))..)).. ( -21.81)
>consensus
_____CCGAAAGCAAUCAAUAUGAAAUGGCUGGGCUUUUAUAAAAACAUGAAUAUAAUGCCCAGCGUUUAGGCAUUUCCAGUUAACAUUGCAGCCACAA
...........(((((.(((..(((((((((((((..(((((..........))))).))))))).......))))))..)))...)))))........ (-20.03 = -19.91 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 10,237,314 – 10,237,408
Length 94
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 95.42
Mean single sequence MFE -22.25
Consensus MFE -20.61
Energy contribution -20.85
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.21
Structure conservation index 0.93
SVM decision value 0.46
SVM RNA-class probability 0.744831
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10237314 94 - 27905053
UUGUGGCUGCAAUGUUAACUGGAAAUGCCUAAACGCUGAGCAUUAUAUUCAUGUUUUUAUAAAAGCCCAGCCAUUUCAUAUUGAUUGCUUUCGG-----
...(((..(((..(((((...((((((.......((((.((.(((((..........)))))..)).))))))))))...))))))))..))).----- ( -16.71)
>DroSec_CAF1 95239 94 - 1
UUGUGGCUGUAAUGUUAACUGGAAAUGCCUAAACGCUGGGCAUUAUAUUCAUGUUUUUAUAAAAGCCCAGCCAUUUCAUAUUGAUUGCUUUCGG-----
.((.((((...(((..(((((((((((((((.....))))))))...)))).)))..)))...))))))((.(((.......))).))......----- ( -21.80)
>DroSim_CAF1 93676 94 - 1
UUGUGGCUGCAAUGUUAACUGGAAAUGCCUAAACGCUGGGCAUUAUAUUCAUGUUUUUAUAAAAGCCCAGCCAUUUCAUAUUGAUUGCUUUCGG-----
...(((..(((..(((((...((((((.......(((((((.(((((..........)))))..)))))))))))))...))))))))..))).----- ( -23.61)
>DroEre_CAF1 96233 93 - 1
UUG-GGCUGCAAUGUUAACUGGAAAUGCCUAAACGCUGGGCAUUAUAUUCAUGUUCUUAUAAAAGCCCAGCCAUUCCAUAUUGAUUGCUUUCGG-----
.((-((((...(((..(((((((((((((((.....))))))))...)))).)))..)))...))))))((...((......))..))......----- ( -24.30)
>DroYak_CAF1 101582 99 - 1
UUGUGGCCGCAAUGUUAACUGGAAAUGCCUAAACGCUGGGCAUUAUAUUCAUGUUUUUAUAAAAGCCCAGCCAUUUCAUAUUGAUUGCUUUCGGGAACG
..((..(((....(((((...((((((.......(((((((.(((((..........)))))..)))))))))))))...)))))......)))..)). ( -24.81)
>consensus
UUGUGGCUGCAAUGUUAACUGGAAAUGCCUAAACGCUGGGCAUUAUAUUCAUGUUUUUAUAAAAGCCCAGCCAUUUCAUAUUGAUUGCUUUCGG_____
....((..(((..(((((...((((((.......(((((((.(((((..........)))))..)))))))))))))...))))))))..))....... (-20.61 = -20.85 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:41 2006