Locus 1937

Sequence ID	2R_DroMel_CAF1
Location	7,302,456 – 7,302,600
Length	144
Max. P	0.880598

overview

Window 1

Location	7,302,456 – 7,302,561
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	95.24
Mean single sequence MFE	-22.47
Consensus MFE	-17.54
Energy contribution	-18.78
Covariance contribution	1.24
Combinations/Pair	1.04
Mean z-score	-1.99
Structure conservation index	0.78
SVM decision value	0.50
SVM RNA-class probability	0.761353
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7302456 105 - 20766785
AUUAUCUGUGGGGUCGAAAAUGACAUUUCGAUUCCUACAGUCACGUUCAGUACUCAAAAGAUAAUUAGACUUUUGAAAUGUGAAGUGAAAAUAACAGAAACCUUA
....(((((((((((((((......)))))))))).....((((.((((....(((((((.........)))))))....)))))))).....)))))....... ( -28.30)
>DroSec_CAF1 98187 105 - 1
AUUAUCGGUGGGGUCGAAAAUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAUAUAAUUACACUUUUCAAAUGUGAAGUGAAAAUAACAGAAACCUUA
......((.((((((((((......)))))))))).))(((.((.....))))).............((((((........)))))).................. ( -22.10)
>DroSim_CAF1 102196 105 - 1
AUUAUCGGUGGGGUCGAAAAUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAUUACACUUUUCAAAUGUGAAGUGAAAAUAACAGAAACCUUA
((((((((.((((((((((......)))))))))).))(((.((.....))))).....))))))..((((((........)))))).................. ( -25.80)
>DroEre_CAF1 98360 105 - 1
AUUAUCUGUGGGCUCGAAGCUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAUUACACUUUCCAAAUGUGAAGUGAAAAUAACAGAAAACUUA
....(((((((..((((((......))))))..))...(((.((.....))))).............(((((..(....)..)))))......)))))....... ( -19.20)
>DroYak_CAF1 100664 105 - 1
AUUAUCUGUGGGGUCGAAAAUGACAUUUCAAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAUUACAAUUUUCAAAUGUGAAGUGAAAAUAACAGAAACCUUA
(((((((...((((((((..((((...............))))..))).).))))...)))))))....(((((((.........)))))))............. ( -16.96)
>consensus
AUUAUCUGUGGGGUCGAAAAUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAUUACACUUUUCAAAUGUGAAGUGAAAAUAACAGAAACCUUA
....(((((((((((((((......)))))))))).....((((.((((......(((((.........)))))......)))))))).....)))))....... (-17.54 = -18.78 +   1.24)

alignment

secondary structure

dotplot

Window 2

Location	7,302,496 – 7,302,600
Length	104
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	95.03
Mean single sequence MFE	-24.96
Consensus MFE	-22.34
Energy contribution	-23.02
Covariance contribution	0.68
Combinations/Pair	1.07
Mean z-score	-1.42
Structure conservation index	0.90
SVM decision value	0.91
SVM RNA-class probability	0.880598
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7302496 104 - 20766785
GCCCUUAACUGAA-AGUAAACAUGUGGUCGACCAAUAAGGAUUAUCUGUGGGGUCGAAAAUGACAUUUCGAUUCCUACAGUCACGUUCAGUACUCAAAAGAUAAU
.......((((((-.((.......(((....)))...........((((((((((((((......)))))).))))))))..)).)))))).............. ( -25.90)
>DroSec_CAF1 98227 105 - 1
GCCCUGAACUGAAAAGUAAACAUGUGGUCAACCAAUAAGGAUUAUCGGUGGGGUCGAAAAUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAUAUAAU
(..(((((((((...((((.(...(((....))).....).)))).((.((((((((((......)))))))))).))..))).))))))..)............ ( -28.10)
>DroSim_CAF1 102236 105 - 1
GCCCUGAACUGAAAAGUAAACAUGUGGUCAACCAAUAAGGAUUAUCGGUGGGGUCGAAAAUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAU
(..(((((((((...((((.(...(((....))).....).)))).((.((((((((((......)))))))))).))..))).))))))..)............ ( -28.10)
>DroEre_CAF1 98400 104 - 1
GCCCUGAACUGAA-AGUAAGCAUGUGGUCAACCAAUAAGGAUUAUCUGUGGGCUCGAAGCUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAU
(..(((((((((.-.....(((.((((((..........)))))).)))((..((((((......))))))..)).....))).))))))..)............ ( -22.40)
>DroYak_CAF1 100704 104 - 1
GCCCUGAACUGAA-AGUAAACAUGUGGUCAGCCAAUAAGGAUUAUCUGUGGGGUCGAAAAUGACAUUUCAAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAU
(..(((((((((.-.((((.(...(((....))).....).))))(((.((((..((((......))))....)))))))))).))))))..)............ ( -20.30)
>consensus
GCCCUGAACUGAA_AGUAAACAUGUGGUCAACCAAUAAGGAUUAUCUGUGGGGUCGAAAAUGACAUUUCGAUUCCUCCAGUCACGUUCAGUACUCAAAAGAUAAU
(..(((((((((.......(((.((((((..........)))))).)))((((((((((......)))))))))).....))).))))))..)............ (-22.34 = -23.02 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:47 2006