Locus 5338

Sequence ID	3L_DroMel_CAF1
Location	14,743,888 – 14,744,088
Length	200
Max. P	0.691827

overview

Window 7

Location	14,743,888 – 14,744,008
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.50
Mean single sequence MFE	-45.02
Consensus MFE	-42.26
Energy contribution	-42.57
Covariance contribution	0.31
Combinations/Pair	1.03
Mean z-score	-1.70
Structure conservation index	0.94
SVM decision value	0.24
SVM RNA-class probability	0.649828
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14743888 120 - 23771897
UCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGGUGCCUUCUCGGACAAUCUGCCCAUUCUGGACGAGAACACCAUUACGGUCAGUCCGUUCUGCGGCGAGAGUGAUAUUUGCC
(((((((((..(((....(((((....)))))...(((((((..((((((..((............))..)))))))))))))((((.....))))))))))))))))............ ( -45.30)
>DroSec_CAF1 8937 120 - 1
UCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGGUGCCUUCUCGGACAAUCUGCCCAUUCUGGACGAGAACACCAUUACGGUGAGUCCGUUCUGCGGCGAGAGUGAUAUUUGCC
(((((((((..(((....(((((....)))))...(((((((..((((((..((............))..)))))))))))))((((.....))))))))))))))))............ ( -45.30)
>DroSim_CAF1 8574 120 - 1
UCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGGUGCCUUCUCGGAUAAUCUGCCCAUUCUGGACGAGAACACCAUUACGGUGAGUCCGUUCUGCGGCGAGAGUGAUAUUUGCC
((((((((((((((....(((((....)))))((((..(((.((.....))...)))...)))))))))(((.((.((((.....))))..)))))...)))))))))............ ( -43.50)
>DroEre_CAF1 9244 120 - 1
UCUUGCCGCCCAGAUUCCGUGGCGUCCGGUACAUGGAUGGUGCCUUCUCGGACAAUCUGCCCAUUCUGGACGAGAACACCAUAACGGUGAGCCCGUUCUGCGGCGAGAGUGAUAUUUGCC
(((((((((..(((...((.(((((((((...((((..((((((.....)).))..))..)))).)))))).....((((.....)))).))))).))))))))))))............ ( -46.00)
>consensus
UCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGGUGCCUUCUCGGACAAUCUGCCCAUUCUGGACGAGAACACCAUUACGGUGAGUCCGUUCUGCGGCGAGAGUGAUAUUUGCC
(((((((((..(((....(((((....)))))...(((((((..((((((..((............))..)))))))))))))((((.....))))))))))))))))............ (-42.26 = -42.57 +   0.31)

alignment

secondary structure

dotplot

Window 8

Location	14,743,968 – 14,744,088
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	96.25
Mean single sequence MFE	-49.98
Consensus MFE	-45.99
Energy contribution	-45.67
Covariance contribution	-0.31
Combinations/Pair	1.08
Mean z-score	-1.67
Structure conservation index	0.92
SVM decision value	0.33
SVM RNA-class probability	0.691827
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14743968 120 - 23771897
GAUCAUCUCGGAGUUUGAGUCACGGGAAGAGGUCCUGCAGGCGCUGUUGUGUGCGUGCUUCAUACCCGGAUUCUCCGGCAUCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGG
...(((((.((((((((((((.((((..((((..(.(((.(((....))).))))..))))...)))))))))..((((.....))))...)))))))(((((....)))))..))))). ( -49.10)
>DroSec_CAF1 9017 120 - 1
GAUCAUCUCGGAGUUUGAGUCCCGGGAAGAGGUCCUGCAGGCGUUGUUGUGUGCGUGCUUCAUACCCGGAUUUUCCGGCAUCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGG
...(((((.((((((((....(((((..((((..(.(((.(((....))).))))..))))...)))))......((((.....))))..))))))))(((((....)))))..))))). ( -50.20)
>DroSim_CAF1 8654 120 - 1
GAUCAUCUCGGAGUUUGAGUCCCGGGAAGAGGUCCUGCAGGCGCUGUUGUGUGCGUGCUUCAUACCCGGAUUCUCCGGCAUCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGG
...(((((.((((((((....(((((..((((..(.(((.(((....))).))))..))))...)))))......((((.....))))..))))))))(((((....)))))..))))). ( -49.30)
>DroEre_CAF1 9324 120 - 1
GAUCAUCUCGGAGUUUGAGUCCCGGGAAGAGGUGCUGCAGGCGCUGCUAUGCGCGUGCUUCAUACCCGGAUUCUCCGGCAUCUUGCCGCCCAGAUUCCGUGGCGUCCGGUACAUGGAUGG
.....((.(((((((((....(((((.....(((..(((.((((......)))).)))..))).)))))......((((.....))))..))))))))).))((((((.....)))))). ( -51.30)
>consensus
GAUCAUCUCGGAGUUUGAGUCCCGGGAAGAGGUCCUGCAGGCGCUGUUGUGUGCGUGCUUCAUACCCGGAUUCUCCGGCAUCUUGCCGCCCAGAUUCCGUGGCGUUCGCUACAUGGAUGG
...(((((.((((((((((((.((((.((.....))(((.((((......)))).)))......)))))))))..((((.....))))...)))))))(((((....)))))..))))). (-45.99 = -45.67 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:41 2006