Locus 6368

Sequence ID 3L_DroMel_CAF1
Location 17,043,892 – 17,043,984
Length 92
Max. P 0.940607
window10203 window10204

overview

Window 3

Location 17,043,892 – 17,043,984
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.13
Mean single sequence MFE -30.48
Consensus MFE -20.57
Energy contribution -22.18
Covariance contribution 1.61
Combinations/Pair 1.13
Mean z-score -2.52
Structure conservation index 0.67
SVM decision value 1.29
SVM RNA-class probability 0.940607
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17043892 92 + 23771897
-----GUGGAGCCAUUUUUGAUAUCUUCCAAU-UGGAGGCUGACGGAGAACUUAAAUUCCUGGAAUGUCAAGUCAUUCCGAGGGGUU--UGG--------------------GGUUUUUU
-----..((((((.((((((.((.(((((...-.))))).)).))))))..((((((((((((((((......)))))).)))))))--)))--------------------)))))).. ( -30.90)
>DroSec_CAF1 11527 96 + 1
-----UUGGAGCCAUUUUUGAUAUCUUCCAAU-UGGAGGCUGACGGAGAACUUAAAUUCCUGGAAUGUCAAGUCAUUCCGGGGGGAUCUUGG--------------G----UGGUUUUUU
-----..((((((.((((((.((.(((((...-.))))).)).))))))((((((.(((((((((((......)))))))))))....))))--------------)----))))))).. ( -32.50)
>DroSim_CAF1 12571 96 + 1
-----GUGGAGCCAUUUUUGAUAUCUUCCAAU-UGGAGGCUGACGGAGAACUUAAAUUCCUGGAAUGUCAAGUCAUUCCGGGGGGAUUUUGG--------------G----UGGUUUUUU
-----..((((((.((((((.((.(((((...-.))))).)).))))))((((((((((((((((((......)))))))))))...)))))--------------)----))))))).. ( -32.80)
>DroEre_CAF1 11227 90 + 1
-----GUGGAGCCAUUUUUGAUAUCUUCCAAU-UGGAGGCUGACGGAGAACUUAAAUUCCUGGAAUGUCAAGUCAUUCCGGGGGCUU--UG----------------------GGUUUUU
-----..((((((.((((((.((.(((((...-.))))).)).)))))).........(((((((((......))))))))))))))--).----------------------....... ( -31.30)
>DroYak_CAF1 12448 112 + 1
-----GUGGAGCCAUUUUUGAUAUCUUCCAAU-UGGAGGCUGACGGAGAACUUAAAUUCCUGGAAUGUCAAGUCAUUCCGGGGGGUU--UGGGGUUUGGGGCUUGGGGUUUCGGGUUUUU
-----..((((((.((((((.((.(((((...-.))))).)).)))))).(((((((((((((((((......)))))).)))))))--))))...((..((.....))..)))))))). ( -37.40)
>DroAna_CAF1 10552 88 + 1
UCUCAGUGCAGCUAUUUUUGAUAUCUUCAAUUUUGGGAGCCGACGAGGAACUUAAAUUCCAAGAAUGUCAAGUCAUUCGGG--------------------------------GUUUUUA
((((.(.((..(((...((((.....))))...)))..)))...))))....((((..((..(((((......)))))..)--------------------------------)..)))) ( -18.00)
>consensus
_____GUGGAGCCAUUUUUGAUAUCUUCCAAU_UGGAGGCUGACGGAGAACUUAAAUUCCUGGAAUGUCAAGUCAUUCCGGGGGGUU__UGG____________________GGUUUUUU
.......((((((.((((((.((.(((((.....))))).)).)))))).......(((((((((((......)))))))))))............................)))))).. (-20.57 = -22.18 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,043,892 – 17,043,984
Length 92
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.13
Mean single sequence MFE -16.65
Consensus MFE -12.97
Energy contribution -12.92
Covariance contribution -0.05
Combinations/Pair 1.16
Mean z-score -1.29
Structure conservation index 0.78
SVM decision value 0.34
SVM RNA-class probability 0.697018
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17043892 92 - 23771897
AAAAAACC--------------------CCA--AACCCCUCGGAAUGACUUGACAUUCCAGGAAUUUAAGUUCUCCGUCAGCCUCCA-AUUGGAAGAUAUCAAAAAUGGCUCCAC-----
........--------------------...--....(((.((((((......))))))))).................(((((((.-...))).(....)......))))....----- ( -16.60)
>DroSec_CAF1 11527 96 - 1
AAAAAACCA----C--------------CCAAGAUCCCCCCGGAAUGACUUGACAUUCCAGGAAUUUAAGUUCUCCGUCAGCCUCCA-AUUGGAAGAUAUCAAAAAUGGCUCCAA-----
.........----.--------------....(((......((((((......)))))).(((((....)))))..)))(((((((.-...))).(....)......))))....----- ( -16.20)
>DroSim_CAF1 12571 96 - 1
AAAAAACCA----C--------------CCAAAAUCCCCCCGGAAUGACUUGACAUUCCAGGAAUUUAAGUUCUCCGUCAGCCUCCA-AUUGGAAGAUAUCAAAAAUGGCUCCAC-----
.........----.--------------............((((..(((((((.((((...))))))))))).))))..(((((((.-...))).(....)......))))....----- ( -15.90)
>DroEre_CAF1 11227 90 - 1
AAAAACC----------------------CA--AAGCCCCCGGAAUGACUUGACAUUCCAGGAAUUUAAGUUCUCCGUCAGCCUCCA-AUUGGAAGAUAUCAAAAAUGGCUCCAC-----
.......----------------------..--.((((((.((((((......)))))).)).......((..((((..........-..))))..)).........))))....----- ( -18.30)
>DroYak_CAF1 12448 112 - 1
AAAAACCCGAAACCCCAAGCCCCAAACCCCA--AACCCCCCGGAAUGACUUGACAUUCCAGGAAUUUAAGUUCUCCGUCAGCCUCCA-AUUGGAAGAUAUCAAAAAUGGCUCCAC-----
.................((((..........--.....((.((((((......)))))).)).......((..((((..........-..))))..)).........))))....----- ( -18.30)
>DroAna_CAF1 10552 88 - 1
UAAAAAC--------------------------------CCCGAAUGACUUGACAUUCUUGGAAUUUAAGUUCCUCGUCGGCUCCCAAAAUUGAAGAUAUCAAAAAUAGCUGCACUGAGA
......(--------------------------------(..(((((......)))))..))...........((((((((((.......((((.....))))....))))).)).))). ( -14.60)
>consensus
AAAAAACC____________________CCA__AACCCCCCGGAAUGACUUGACAUUCCAGGAAUUUAAGUUCUCCGUCAGCCUCCA_AUUGGAAGAUAUCAAAAAUGGCUCCAC_____
.........................................((((((......)))))).(((((....))))).....(((((((.....))).(....)......))))......... (-12.97 = -12.92 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:43 2006