Locus 6395

Sequence ID 3L_DroMel_CAF1
Location 17,133,615 – 17,133,731
Length 116
Max. P 0.938020
window10243 window10244

overview

Window 3

Location 17,133,615 – 17,133,731
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.60
Mean single sequence MFE -26.19
Consensus MFE -23.84
Energy contribution -24.28
Covariance contribution 0.44
Combinations/Pair 1.09
Mean z-score -1.25
Structure conservation index 0.91
SVM decision value 0.27
SVM RNA-class probability 0.661123
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17133615 116 + 23771897
----GUGCGAAAACUGUAUAGUAAAACUGUCUGACUUUCAUAAUAGAAAAGUGGCAUUUUAAUGGGUUGGUGUCAGAACAGUUUUACUUUAUAUUCUGCCCUGACCUUGCGAUAAAUCAU
----.(((((....((((.((((((((((((((((..(((......((((......)))).......))).))))).))))))))))).)))).((......))..)))))......... ( -26.82)
>DroSec_CAF1 18125 114 + 1
----GUGCGAAAAUUGUAGAGUAAAACUGUCUGACUUUCAUA--UAAUAAGUGGCAUUUUAAUGGCUUGGUGUCAGAACAGUUUUCCUUUAUAUUCUGCCCUGACCUUGCGAUAAAUCAU
----.(((((....(((((((.(((((((((((((..(((..--((.((((......)))).))...))).))))).)))))))).))))))).((......))..)))))......... ( -26.10)
>DroSim_CAF1 14892 114 + 1
----GUGCGAAAAUUGUAGAGUAAAACUGUCUGACUUUCAUU--UAAUAAGUGGCAUUUUAAUGGCUUGGUGUCAGAACAGUUUUACUUUAUAUUCUGCCCUGACCUUGCGAUAAAUCAU
----.(((((....(((((((((((((((((((((..(((.(--((.((((......)))).)))..))).))))).)))))))))))))))).((......))..)))))......... ( -30.30)
>DroEre_CAF1 19203 116 + 1
--GUGUGCGAAAAUUGCAGACUAAAACUGUCUGACUUUUAUA--UAAUAAGUGGCAUUUUAAUGGGCUUGUGUCGGAACAGUUUUAUUUUAUAUUCUACCCUGACCUUGCGAUAAAUCAU
--((.(((((...))))).))((((((((((((((.......--..((((((..(((....))).))))))))))).))))))))).................................. ( -22.80)
>DroYak_CAF1 20337 118 + 1
AAGUGUGCGAAAAUUGUAGAGUAAAACUGUCUGACUUUUAUA--UAAUAAGUGGCGUUUUAAUGGGUUGAUGUCAGAACAGUUUUACAUUAUAUUCUACCCUGACCUUGCGAUAAAUCAU
.....(((((.....((((((((((((((((((((..(((..--((.((((......)))).))...))).))))).)))))))))).......))))).......)))))......... ( -24.91)
>consensus
____GUGCGAAAAUUGUAGAGUAAAACUGUCUGACUUUCAUA__UAAUAAGUGGCAUUUUAAUGGGUUGGUGUCAGAACAGUUUUACUUUAUAUUCUGCCCUGACCUUGCGAUAAAUCAU
.....(((((....(((((((((((((((((((((..((((.........))))(((....))).......))))).)))))))))))))))).((......))..)))))......... (-23.84 = -24.28 +   0.44)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,133,615 – 17,133,731
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.60
Mean single sequence MFE -22.68
Consensus MFE -20.06
Energy contribution -20.30
Covariance contribution 0.24
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.88
SVM decision value 1.27
SVM RNA-class probability 0.938020
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17133615 116 - 23771897
AUGAUUUAUCGCAAGGUCAGGGCAGAAUAUAAAGUAAAACUGUUCUGACACCAACCCAUUAAAAUGCCACUUUUCUAUUAUGAAAGUCAGACAGUUUUACUAUACAGUUUUCGCAC----
.((((((......))))))..(((((((.((.(((((((((((.(((((.......(((....))).....((((......)))))))))))))))))))).))..))))).))..---- ( -27.80)
>DroSec_CAF1 18125 114 - 1
AUGAUUUAUCGCAAGGUCAGGGCAGAAUAUAAAGGAAAACUGUUCUGACACCAAGCCAUUAAAAUGCCACUUAUUA--UAUGAAAGUCAGACAGUUUUACUCUACAAUUUUCGCAC----
.((((((......))))))..(((((((.((.((.((((((((.(((((.....(.(((....))).)..((((..--.))))..))))))))))))).)).))..))))).))..---- ( -20.00)
>DroSim_CAF1 14892 114 - 1
AUGAUUUAUCGCAAGGUCAGGGCAGAAUAUAAAGUAAAACUGUUCUGACACCAAGCCAUUAAAAUGCCACUUAUUA--AAUGAAAGUCAGACAGUUUUACUCUACAAUUUUCGCAC----
.((((((......))))))..(((((((.((.(((((((((((.(((((.....(.(((....))).)..((((..--.))))..)))))))))))))))).))..))))).))..---- ( -24.60)
>DroEre_CAF1 19203 116 - 1
AUGAUUUAUCGCAAGGUCAGGGUAGAAUAUAAAAUAAAACUGUUCCGACACAAGCCCAUUAAAAUGCCACUUAUUA--UAUAAAAGUCAGACAGUUUUAGUCUGCAAUUUUCGCACAC--
.((((((......))))))..(((((........((((((((((..(((..........(((........)))...--.......))).)))))))))).))))).............-- ( -17.65)
>DroYak_CAF1 20337 118 - 1
AUGAUUUAUCGCAAGGUCAGGGUAGAAUAUAAUGUAAAACUGUUCUGACAUCAACCCAUUAAAACGCCACUUAUUA--UAUAAAAGUCAGACAGUUUUACUCUACAAUUUUCGCACACUU
.((((((......))))))..(((((.......((((((((((.(((((..........(((........)))...--.......))))))))))))))))))))............... ( -23.36)
>consensus
AUGAUUUAUCGCAAGGUCAGGGCAGAAUAUAAAGUAAAACUGUUCUGACACCAACCCAUUAAAAUGCCACUUAUUA__UAUGAAAGUCAGACAGUUUUACUCUACAAUUUUCGCAC____
.((((((......))))))..(((((((.((.(((((((((((.(((((....................................)))))))))))))))).))..))))).))...... (-20.06 = -20.30 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:23 2006