Locus 3723

Sequence ID	X_DroMel_CAF1
Location	9,923,516 – 9,923,608
Length	92
Max. P	0.676483

overview

Window 2

Location	9,923,516 – 9,923,608
Length	92
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	82.21
Mean single sequence MFE	-23.60
Consensus MFE	-10.57
Energy contribution	-10.69
Covariance contribution	0.12
Combinations/Pair	1.18
Mean z-score	-2.46
Structure conservation index	0.45
SVM decision value	0.30
SVM RNA-class probability	0.676483
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9923516 92 + 22224390
UUCCCAUAUCUUCCUCAGACAAUCAGA---CAAUUGAUAUUGGAAUUUGGCAGAGCAUAGUGGGAGGGGAAAGAAUCAU---CUUUCCC--CGUUCCA-CA
((((.(((((....((.(.....).))---.....))))).))))..............(((((((((((((((....)---)))))))--).)))))-). ( -30.30)
>DroSec_CAF1 20709 93 + 1
UUCCCAUAUCUUCCACAGACAAUCAGA---CAGUUAAUAUUGGAAUUUAGGAGAGCAUAAA--GUGGGGAAAGAAUCUUCUUCUUUCCC--CGUUCCC-CA
......((..(((((..(((.......---..))).....)))))..))((.((((.....--..((((((((((.....)))))))))--))))).)-). ( -22.71)
>DroSim_CAF1 20891 93 + 1
UUCCCAUAUCUUCCACAGACAAUCAGA---CAGUUAAUAUUGGAAUUCAGGAGAGCAUAGA--GUGGGGAAAGAAUCUUCUUCUUUCCC--CGUUCCC-CA
((((......(((((..(((.......---..))).....)))))....))))......((--((((((((((((.....)))))))))--)))))..-.. ( -22.90)
>DroEre_CAF1 21141 92 + 1
CUCCCAUAUCUUCCUCAGACAAUCAGA---CAAUUGAUAUUGGAUUUUAGAAGAGCAUAAU--G-GGGGCAAGAAUCUACUUCUGCCCC--CUUUCCC-CA
.(((.(((((....((.(.....).))---.....))))).))).................--(-((((((.(((.....)))))))))--)......-.. ( -21.80)
>DroYak_CAF1 20904 98 + 1
CUCCCAUAUCUUCCGCAGACAAUCAGACGACAAUUGAUAUUGGAUUUUAGAAAAGCACAAA--G-GGGGCAAGAAUCUCCUUUCGCCCCCCCUUUCCCACC
.(((.(((((.........................))))).)))..............(((--(-((((...(((......)))...))))))))...... ( -20.31)
>consensus
UUCCCAUAUCUUCCACAGACAAUCAGA___CAAUUGAUAUUGGAAUUUAGAAGAGCAUAAA__G_GGGGAAAGAAUCUUCUUCUUUCCC__CGUUCCC_CA
.(((.(((((.........................))))).))).....................((((((.(((.....)))))))))............ (-10.57 = -10.69 +   0.12)

alignment

secondary structure

dotplot

Window 3

Location	9,923,516 – 9,923,608
Length	92
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	82.21
Mean single sequence MFE	-28.22
Consensus MFE	-14.22
Energy contribution	-15.74
Covariance contribution	1.52
Combinations/Pair	1.22
Mean z-score	-2.14
Structure conservation index	0.50
SVM decision value	0.01
SVM RNA-class probability	0.536341
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9923516 92 - 22224390
UG-UGGAACG--GGGAAAG---AUGAUUCUUUCCCCUCCCACUAUGCUCUGCCAAAUUCCAAUAUCAAUUG---UCUGAUUGUCUGAGGAAGAUAUGGGAA
.(-(((...(--(((((((---(....)))))))))..)))).........(((..((((.....(((((.---...))))).....))))....)))... ( -29.50)
>DroSec_CAF1 20709 93 - 1
UG-GGGAACG--GGGAAAGAAGAAGAUUCUUUCCCCAC--UUUAUGCUCUCCUAAAUUCCAAUAUUAACUG---UCUGAUUGUCUGUGGAAGAUAUGGGAA
.(-((((..(--(((((((((.....)))))))))).(--.....).)))))....(((((..((((....---..))))(((((.....)))))))))). ( -26.70)
>DroSim_CAF1 20891 93 - 1
UG-GGGAACG--GGGAAAGAAGAAGAUUCUUUCCCCAC--UCUAUGCUCUCCUGAAUUCCAAUAUUAACUG---UCUGAUUGUCUGUGGAAGAUAUGGGAA
((-(((...(--(((((((((.....)))))))))).)--))))...((((.((..(((((....((((..---...).)))....)))))..)).)))). ( -27.40)
>DroEre_CAF1 21141 92 - 1
UG-GGGAAAG--GGGGCAGAAGUAGAUUCUUGCCCC-C--AUUAUGCUCUUCUAAAAUCCAAUAUCAAUUG---UCUGAUUGUCUGAGGAAGAUAUGGGAG
.(-(((...(--(((((((((.....))).))))))-)--......)))).......(((.(((((..((.---((.(.....).)).)).))))).))). ( -26.60)
>DroYak_CAF1 20904 98 - 1
GGUGGGAAAGGGGGGGCGAAAGGAGAUUCUUGCCCC-C--UUUGUGCUUUUCUAAAAUCCAAUAUCAAUUGUCGUCUGAUUGUCUGCGGAAGAUAUGGGAG
..(((((((((((((((((.((....)).)))))))-)--).....))))))))...(((.(((((..((((.(.(.....).).))))..))))).))). ( -30.90)
>consensus
UG_GGGAACG__GGGAAAGAAGAAGAUUCUUUCCCC_C__UUUAUGCUCUCCUAAAUUCCAAUAUCAAUUG___UCUGAUUGUCUGAGGAAGAUAUGGGAA
............(((((((((.....)))))))))..............(((((..((((.....(((((.......))))).....))))....))))). (-14.22 = -15.74 +   1.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:38 2006