Locus 150

Sequence ID	X_DroMel_CAF1
Location	534,268 – 534,367
Length	99
Max. P	0.998126

overview

Window 6

Location	534,268 – 534,367
Length	99
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.47
Mean single sequence MFE	-30.40
Consensus MFE	-20.51
Energy contribution	-20.84
Covariance contribution	0.33
Combinations/Pair	1.07
Mean z-score	-2.28
Structure conservation index	0.67
SVM decision value	0.93
SVM RNA-class probability	0.884087
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 534268 99 + 22224390
ACGAGAUGGUUUUGCAGCACUGCUUCCGACACUUUCAACAUUCUUGCGAAA----------------UACUCUCAAAGG-----UAACGAAAUGUGCCCAGAAAGCGUCGGAACAACCAU
.....((((((..(((....)))(((((((.(((((.......(((.((..----------------...)).))).((-----((........))))..))))).))))))).)))))) ( -28.00)
>DroSec_CAF1 22310 104 + 1
ACGAGAUGGUUUUGCAGCACUGCUUCCGACACUUUCAACAUUCUUGCGAAA----------------UACUCUCAAAGGUAAGGUAACGAAAUGUGCCCAGAAAGCGUCGGAACAACCAU
.....((((((..(((....)))(((((((.(((((...((..(((.((..----------------...)).)))..))..((((........))))..))))).))))))).)))))) ( -29.70)
>DroSim_CAF1 22471 104 + 1
ACGAGAUGGUUUUGCAGCACUGCUUCCGACACUUUCAACAUUCUUGCGAAA----------------UACUCUCAAAGGUAAGGUAACGAAAUGUGCCCAGAGAGCGUCGGAACAACCAU
.....((((((..(((....)))(((((((.(((((...((..(((.((..----------------...)).)))..))..((((........))))..))))).))))))).)))))) ( -29.80)
>DroEre_CAF1 25706 99 + 1
AUGGGAUGGUUUGGCAGCACUGCUUCCGACACUUUCAACAUUCUUGCGAAG----------------UAUUCUCAAAGG-----UAACGAAAUGUGCCCAGAAAGCGUCGGAACAACCAU
.....((((((.((((....)))(((((((.(((((.......(((.((..----------------...)).))).((-----((........))))..))))).)))))))))))))) ( -28.00)
>DroYak_CAF1 20034 106 + 1
UUGCGAUGGUUU---------GCUUCCGACACUUUCAGCAUUCUUGCGAUGGAAUACCUAGCCGGAACACUCUCAAAGG-----UAACGAAAGGUGCCCAGAAAGCGUCGGAACAACCAU
.....((((((.---------(.(((((((.(((((((..((((.((...((....))..)).))))..))......((-----((.(....).))))..))))).)))))))))))))) ( -36.50)
>consensus
ACGAGAUGGUUUUGCAGCACUGCUUCCGACACUUUCAACAUUCUUGCGAAA________________UACUCUCAAAGG_____UAACGAAAUGUGCCCAGAAAGCGUCGGAACAACCAU
.....((((((..(((....)))(((((((.(((((.(((((.(((.........................................)))))))).....))))).))))))).)))))) (-20.51 = -20.84 +   0.33)

alignment

secondary structure

dotplot

Window 7

Location	534,268 – 534,367
Length	99
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.47
Mean single sequence MFE	-35.52
Consensus MFE	-30.85
Energy contribution	-31.54
Covariance contribution	0.69
Combinations/Pair	1.03
Mean z-score	-2.96
Structure conservation index	0.87
SVM decision value	3.01
SVM RNA-class probability	0.998126
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 534268 99 - 22224390
AUGGUUGUUCCGACGCUUUCUGGGCACAUUUCGUUA-----CCUUUGAGAGUA----------------UUUCGCAAGAAUGUUGAAAGUGUCGGAAGCAGUGCUGCAAAACCAUCUCGU
((((((.(((((((((((((...(((..(((((...-----....)))))...----------------.(((....)))))).)))))))))))))(((....)))..))))))..... ( -34.70)
>DroSec_CAF1 22310 104 - 1
AUGGUUGUUCCGACGCUUUCUGGGCACAUUUCGUUACCUUACCUUUGAGAGUA----------------UUUCGCAAGAAUGUUGAAAGUGUCGGAAGCAGUGCUGCAAAACCAUCUCGU
((((((.(((((((((((((...(((........(((((((....)))).)))----------------.(((....)))))).)))))))))))))(((....)))..))))))..... ( -35.50)
>DroSim_CAF1 22471 104 - 1
AUGGUUGUUCCGACGCUCUCUGGGCACAUUUCGUUACCUUACCUUUGAGAGUA----------------UUUCGCAAGAAUGUUGAAAGUGUCGGAAGCAGUGCUGCAAAACCAUCUCGU
((((((.((((((((((.((...(((........(((((((....)))).)))----------------.(((....)))))).)).))))))))))(((....)))..))))))..... ( -32.00)
>DroEre_CAF1 25706 99 - 1
AUGGUUGUUCCGACGCUUUCUGGGCACAUUUCGUUA-----CCUUUGAGAAUA----------------CUUCGCAAGAAUGUUGAAAGUGUCGGAAGCAGUGCUGCCAAACCAUCCCAU
((((((.(((((((((((((...(((..(((((...-----....)))))...----------------.(((....)))))).)))))))))))))(((....)))..))))))..... ( -33.70)
>DroYak_CAF1 20034 106 - 1
AUGGUUGUUCCGACGCUUUCUGGGCACCUUUCGUUA-----CCUUUGAGAGUGUUCCGGCUAGGUAUUCCAUCGCAAGAAUGCUGAAAGUGUCGGAAGC---------AAACCAUCGCAA
((((((.(((((((((((((.((((((.(((((...-----....))))))))))).(((..((....)).((....))..))))))))))))))))..---------.))))))..... ( -41.70)
>consensus
AUGGUUGUUCCGACGCUUUCUGGGCACAUUUCGUUA_____CCUUUGAGAGUA________________UUUCGCAAGAAUGUUGAAAGUGUCGGAAGCAGUGCUGCAAAACCAUCUCGU
((((((.(((((((((((((..((((..(((((............)))))....................(((....))))))))))))))))))))(((....)))..))))))..... (-30.85 = -31.54 +   0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:13 2006