Locus 484

Sequence ID	X_DroMel_CAF1
Location	1,408,974 – 1,409,083
Length	109
Max. P	0.982828

overview

Window 6

Location	1,408,974 – 1,409,083
Length	109
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	67.00
Mean single sequence MFE	-42.38
Consensus MFE	-17.87
Energy contribution	-17.73
Covariance contribution	-0.14
Combinations/Pair	1.30
Mean z-score	-2.30
Structure conservation index	0.42
SVM decision value	1.93
SVM RNA-class probability	0.982828
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1408974 109 + 22224390
GACGGUUUGGUUGCGCGCCGCCAGCAACCAGGGCCUGCUGUUCACCGACAGCACUUCCUGGCGCACCGCGACGGGCACAGCUGUUGCUGGUGGCGCUGAUUUUG-----GAGUG
..((.((..(...((((((((((((((((((((..(((((((....)))))))..)))))(.((.(((...))))).)....)))))))))))))).)...)..-----)).)) ( -54.00)
>DroVir_CAF1 849 94 + 1
UACACUUUGAUUCUGGGCUUGCAGCAGCCACGGCUUUUUGUUCACCGUGAGGAUCUCUUGGCGAG---------------UGGCUGCUG---CAGCUGCUGUUGAGUGU--GUG
(((((.(..((....((((.(((((((((((.(((....(....((....))....)..)))..)---------------)))))))))---)))))...))..)))))--).. ( -42.60)
>DroPse_CAF1 45317 91 + 1
UACGGUUUGGUUCUGGGCCUCCAGCAGCCAAGGCAUGCUGUUUACUCUCAGGACUUCUUUGUGUC---------------UUGUUGCUG---UGAUUAAUUCUG-----AUUCA
((((((..(((((((((....(((((((....)).)))))......)))))))))..........---------------.....))))---))..........-----..... ( -23.53)
>DroSec_CAF1 14443 109 + 1
GACGGUUUGGUUGCGCGCCGCCAGCAACCAGGGCCUGCUGUUCACCGACAGCACUUCCUGGCGCACCGCGACGGGCACAGUUGUUGCUGGUGGCGCUGAUUCUG-----GAGUG
..((.((..(...((((((((((((((((((((..(((((((....)))))))..)))))(.((.(((...))))).)....)))))))))))))).)...)..-----)).)) ( -55.30)
>DroEre_CAF1 10775 109 + 1
GACGGUUUGGUUGCGCGCCGCCAGCAACCAGGGCCUGCUGUUCACCGACAGCACUUCCUGGCGCACCGCGACGGGCACAGCUGUUGCUGGUGGCGCUGAUUCUG-----GAGUG
..((.((..(...((((((((((((((((((((..(((((((....)))))))..)))))(.((.(((...))))).)....)))))))))))))).)...)..-----)).)) ( -55.30)
>DroPer_CAF1 48097 91 + 1
UACGGUUUGGUUCUGGGCCUCCAGCAGCCAAGGCAUGCUGUUUACUCUCAGGACUUCUUUGUGUC---------------UUGUUGCUG---UGAUUAAUUCUG-----AUUCA
((((((..(((((((((....(((((((....)).)))))......)))))))))..........---------------.....))))---))..........-----..... ( -23.53)
>consensus
GACGGUUUGGUUCCGCGCCGCCAGCAACCAGGGCCUGCUGUUCACCGACAGCACUUCCUGGCGCA_______________UUGUUGCUG___GCGCUGAUUCUG_____GAGUG
...(((..(....)..)))..((((((((((((..(((((........)))))..))))).....((.....))........)))))))......................... (-17.87 = -17.73 +  -0.14)

alignment

secondary structure

dotplot

Window 7

Location	1,408,974 – 1,409,083
Length	109
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	67.00
Mean single sequence MFE	-36.03
Consensus MFE	-11.56
Energy contribution	-11.92
Covariance contribution	0.36
Combinations/Pair	1.25
Mean z-score	-2.09
Structure conservation index	0.32
SVM decision value	0.78
SVM RNA-class probability	0.849307
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1408974 109 - 22224390
CACUC-----CAAAAUCAGCGCCACCAGCAACAGCUGUGCCCGUCGCGGUGCGCCAGGAAGUGCUGUCGGUGAACAGCAGGCCCUGGUUGCUGGCGGCGCGCAACCAAACCGUC
.....-----........(((((.((((((((....(((((((...))).))))((((...((((((......))))))...)))))))))))).))))).............. ( -48.70)
>DroVir_CAF1 849 94 - 1
CAC--ACACUCAACAGCAGCUG---CAGCAGCCA---------------CUCGCCAAGAGAUCCUCACGGUGAACAAAAAGCCGUGGCUGCUGCAAGCCCAGAAUCAAAGUGUA
...--(((((........((((---(((((((((---------------((((((..(((...)))..)))))..........))))))))))).)))..........))))). ( -35.67)
>DroPse_CAF1 45317 91 - 1
UGAAU-----CAGAAUUAAUCA---CAGCAACAA---------------GACACAAAGAAGUCCUGAGAGUAAACAGCAUGCCUUGGCUGCUGGAGGCCCAGAACCAAACCGUA
.....-----............---..((.....---------------(((........)))(((.(.((...(((((.((....)))))))...)))))).........)). ( -17.20)
>DroSec_CAF1 14443 109 - 1
CACUC-----CAGAAUCAGCGCCACCAGCAACAACUGUGCCCGUCGCGGUGCGCCAGGAAGUGCUGUCGGUGAACAGCAGGCCCUGGUUGCUGGCGGCGCGCAACCAAACCGUC
.....-----........(((((.((((((((....(((((((...))).))))((((...((((((......))))))...)))))))))))).))))).............. ( -48.70)
>DroEre_CAF1 10775 109 - 1
CACUC-----CAGAAUCAGCGCCACCAGCAACAGCUGUGCCCGUCGCGGUGCGCCAGGAAGUGCUGUCGGUGAACAGCAGGCCCUGGUUGCUGGCGGCGCGCAACCAAACCGUC
.....-----........(((((.((((((((....(((((((...))).))))((((...((((((......))))))...)))))))))))).))))).............. ( -48.70)
>DroPer_CAF1 48097 91 - 1
UGAAU-----CAGAAUUAAUCA---CAGCAACAA---------------GACACAAAGAAGUCCUGAGAGUAAACAGCAUGCCUUGGCUGCUGGAGGCCCAGAACCAAACCGUA
.....-----............---..((.....---------------(((........)))(((.(.((...(((((.((....)))))))...)))))).........)). ( -17.20)
>consensus
CACUC_____CAGAAUCAGCGC___CAGCAACAA_______________UGCGCCAAGAAGUCCUGACGGUGAACAGCAGGCCCUGGCUGCUGGAGGCCCACAACCAAACCGUA
.........................(((((((...................((((.((.....))...))))..(((......))))))))))..................... (-11.56 = -11.92 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:43 2006