Locus 6403

Sequence ID	X_DroMel_CAF1
Location	16,051,712 – 16,051,821
Length	109
Max. P	0.892796

overview

Window 8

Location	16,051,712 – 16,051,821
Length	109
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.86
Mean single sequence MFE	-32.96
Consensus MFE	-25.84
Energy contribution	-26.24
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.64
Structure conservation index	0.78
SVM decision value	0.38
SVM RNA-class probability	0.711083
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16051712 109 + 22224390
AUGGGGGCGAUUCGCUUCGAUUUU-UUUUCCCUGUCGCCACACAGCACCAAUGGAAUUCGAGCACUGGUGACAAAGAAGCGACGCUGCUGCUUCCUCUUUCCAC--CCCAC--------A
.(((((..((.(((((((((....-...))..((((((((....((...............))..))))))))..))))))).((....))........))..)--)))).--------. ( -31.46)
>DroSec_CAF1 5907 111 + 1
AUGGGGGCGAUUCGCUUCGAUUUU-UUUUCCCUGUCGCCACACAGCACCAAUGGAAUUCGAGCACUGGUGACAAAGAAGCGACGCUGCUGCUUCCUCUUUCCCCCACCCCC--------A
.((((((.(..(((((((((....-...))..((((((((....((...............))..))))))))..))))))).((....)).............).)))))--------) ( -34.06)
>DroSim_CAF1 2600 111 + 1
AUGGGGGCGAUUCGCUUCGUUUUU-UUUUCCCUGUCGCCACACAGCACCAAUGGAAUUCGAGCACUGGUGACAAAGAAGCGACGCUGCUGCUUCCUCUUUCCCCCACCCCC--------A
.((((((.(..(((((((((((..-..((((.((..((......))..))..))))...))))..((....))..))))))).((....)).............).)))))--------) ( -34.20)
>DroEre_CAF1 6398 116 + 1
AUGGGGGCGAUUCGCUUCGAUUUU--UUUCCCUGUCGCCACACAGCACCAAUGGAAUUCGAGCACUGGUGACAAAGAAGCGUCGCUGCUGCUUCCUCUUUCCAC--CCCUCUUUCCACUA
..(((((((((.......((....--..))...))))))............(((((...(((((..((((((........))))))..))))).....))))).--)))........... ( -31.50)
>DroYak_CAF1 2336 110 + 1
AUGGGGGCGAUUCGCUUCGAUUUUUUUUUCCCUGUCGCCCCACAGCACCAAUGGAAUUCGAGCACUGGUGACAAAGAAGCGUCGCUGCUGCUUCCUCUUUGCAC--CCCCAU--------
((((((((((..((((((.............((((......))))(((((.((.........)).))))).....))))))))))...(((.........))).--))))))-------- ( -33.60)
>consensus
AUGGGGGCGAUUCGCUUCGAUUUU_UUUUCCCUGUCGCCACACAGCACCAAUGGAAUUCGAGCACUGGUGACAAAGAAGCGACGCUGCUGCUUCCUCUUUCCAC__CCCCC________A
..((.((((..(((((((.............((((......))))(((((.((.........)).))))).....))))))))))).))............................... (-25.84 = -26.24 +   0.40)

alignment

secondary structure

dotplot

Window 9

Location	16,051,712 – 16,051,821
Length	109
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.86
Mean single sequence MFE	-41.50
Consensus MFE	-31.00
Energy contribution	-32.00
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.43
Structure conservation index	0.75
SVM decision value	0.97
SVM RNA-class probability	0.892796
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16051712 109 - 22224390
U--------GUGGG--GUGGAAAGAGGAAGCAGCAGCGUCGCUUCUUUGUCACCAGUGCUCGAAUUCCAUUGGUGCUGUGUGGCGACAGGGAAAA-AAAAUCGAAGCGAAUCGCCCCCAU
(--------(.(((--((((.........((....)).(((((((.((((((((((..(.(((......))))..))).)))))))....((...-....))))))))).))))))))). ( -40.60)
>DroSec_CAF1 5907 111 - 1
U--------GGGGGUGGGGGAAAGAGGAAGCAGCAGCGUCGCUUCUUUGUCACCAGUGCUCGAAUUCCAUUGGUGCUGUGUGGCGACAGGGAAAA-AAAAUCGAAGCGAAUCGCCCCCAU
(--------((((((((............((....)).(((((((.((((((((((..(.(((......))))..))).)))))))....((...-....))))))))).))))))))). ( -44.40)
>DroSim_CAF1 2600 111 - 1
U--------GGGGGUGGGGGAAAGAGGAAGCAGCAGCGUCGCUUCUUUGUCACCAGUGCUCGAAUUCCAUUGGUGCUGUGUGGCGACAGGGAAAA-AAAAACGAAGCGAAUCGCCCCCAU
(--------((((((((............((....)).(((((((.((((((((((..(.(((......))))..))).)))))))..(......-.....)))))))).))))))))). ( -43.60)
>DroEre_CAF1 6398 116 - 1
UAGUGGAAAGAGGG--GUGGAAAGAGGAAGCAGCAGCGACGCUUCUUUGUCACCAGUGCUCGAAUUCCAUUGGUGCUGUGUGGCGACAGGGAAA--AAAAUCGAAGCGAAUCGCCCCCAU
.........(.(((--((((.........((....))..((((((.((((((((((..(.(((......))))..))).)))))))....((..--....))))))))..)))))))).. ( -39.50)
>DroYak_CAF1 2336 110 - 1
--------AUGGGG--GUGCAAAGAGGAAGCAGCAGCGACGCUUCUUUGUCACCAGUGCUCGAAUUCCAUUGGUGCUGUGGGGCGACAGGGAAAAAAAAAUCGAAGCGAAUCGCCCCCAU
--------((((((--(((..........((....))..(((((((((((((((((((.........)))))))(((....)))))))))((........))))))))...))))))))) ( -39.40)
>consensus
U________GGGGG__GUGGAAAGAGGAAGCAGCAGCGUCGCUUCUUUGUCACCAGUGCUCGAAUUCCAUUGGUGCUGUGUGGCGACAGGGAAAA_AAAAUCGAAGCGAAUCGCCCCCAU
.........(((((...............((....))..((((((.((((((((((..(.(((......))))..))).)))))))....((........)))))))).....))))).. (-31.00 = -32.00 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:56 2006