Locus 2687

Sequence ID	2L_DroMel_CAF1
Location	7,510,860 – 7,511,018
Length	158
Max. P	0.702642

overview

Window 5

Location	7,510,860 – 7,510,978
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	91.35
Mean single sequence MFE	-30.87
Consensus MFE	-24.82
Energy contribution	-25.85
Covariance contribution	1.03
Combinations/Pair	1.16
Mean z-score	-2.40
Structure conservation index	0.80
SVM decision value	0.36
SVM RNA-class probability	0.702642
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7510860 118 + 22407834
CAUUUACAUGGGCACACUGAACAAACGCUUUUCACACACCCAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAA
......((((((.....((((.........))))....))))))..--......(((((.(((....((((((((....)))))))).....(((((.....)))))...))).))))). ( -30.50)
>DroSec_CAF1 13073 118 + 1
CAUUUACAUGGGCACACUGAACAAACGCUUUUCACACACCCAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAA
......((((((.....((((.........))))....))))))..--......(((((.(((....((((((((....)))))))).....(((((.....)))))...))).))))). ( -30.50)
>DroSim_CAF1 16221 118 + 1
CAUUUACAUGGGCACACUGAACAAACGCUUUUCACACACCCAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAA
......((((((.....((((.........))))....))))))..--......(((((.(((....((((((((....)))))))).....(((((.....)))))...))).))))). ( -30.50)
>DroEre_CAF1 11916 118 + 1
CAUUUACAUGGGCACACUGAACAAACGCUUUUCACACACCCAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUUCCAGUAGGAAAA
......((((((.....((((.........))))....))))))..--......(((((.(((....((((((((....))))))))....((((((.....))))))..))).))))). ( -30.80)
>DroYak_CAF1 12459 118 + 1
CAUUUACAUGGGCACACUGAACAAACGCUUUUCACACACCCAUGCA--GUCAGAUUUUUAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGCAAAA
......((((((.....((((.........))))....))))))..--...................((((((((....))))))))......((((...(.((....)).).))))... ( -29.00)
>DroAna_CAF1 13451 112 + 1
CAUUUACAUAUGCACC---ACCUAACGCUUUUCACACACGCUGGCUGGGUUGGCUUUUC-----UUCUCGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGCGGAGAGA
................---........((((((.....(((((((.(((..((....))-----..))))))))))...(((((((.......((((.....))))))))))))))))). ( -33.91)
>consensus
CAUUUACAUGGGCACACUGAACAAACGCUUUUCACACACCCAUGCA__GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAA
......((((((.....((((.........))))....))))))..........(((((.(((....((((((((....)))))))).....(((((.....)))))...))).))))). (-24.82 = -25.85 +   1.03)

alignment

secondary structure

dotplot

Window 6

Location	7,510,900 – 7,511,018
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	91.12
Mean single sequence MFE	-36.48
Consensus MFE	-30.14
Energy contribution	-30.00
Covariance contribution	-0.14
Combinations/Pair	1.22
Mean z-score	-1.99
Structure conservation index	0.83
SVM decision value	0.28
SVM RNA-class probability	0.666684
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7510900 118 + 22407834
CAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAAGAGAUAGCCAUAGAUUGACAGCUGGCAGCAGAGUGAGAUG
..(((.--(((((....((((((....((((((((....))))))))........(((((((.((......)).)))))))..........)).))))...))))).))).......... ( -36.00)
>DroSec_CAF1 13113 118 + 1
CAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAAGAGAUAGCCAUAGACUGACAGCUGGCAGCAGAGUGAGAUG
..(((.--(((((....(((.......((((((((....))))))))........(((((((.((......)).)))))))..............)))...))))).))).......... ( -35.20)
>DroSim_CAF1 16261 118 + 1
CAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAAGAGAUAGCCAUAGAUUGACAGCUGGCAGCAGAGUGAGAUG
..(((.--(((((....((((((....((((((((....))))))))........(((((((.((......)).)))))))..........)).))))...))))).))).......... ( -36.00)
>DroEre_CAF1 11956 118 + 1
CAUGCA--GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUUCCAGUAGGAAAAGAGAUAGCCAUAGAUUGACAGCUGGCAGCAGAGAGAGAUG
..(((.--(((((....((((((....((((((((....))))))))........(((((((.((......)).)))))))..........)).))))...))))).))).......... ( -36.00)
>DroYak_CAF1 12499 118 + 1
CAUGCA--GUCAGAUUUUUAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGCAAAAGAGAUAGCCAUAGAUUGACAGCUGGCAGCAGAGAGAGAUG
......--...................((((((((....))))))))........((((..(.((.(((((((.((((................))).).))))))))).)..))))... ( -32.59)
>DroAna_CAF1 13488 115 + 1
CUGGCUGGGUUGGCUUUUC-----UUCUCGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGCGGAGAGAGAGACAGCCUCAGAUUGACAGCUGGCAGGCGAUAGAGAUA
(((((((((..(((.....-----.....((((((....)))))).........)))..)))))).((((((((..((..(((.....)))...))..).))))))).....)))..... ( -43.11)
>consensus
CAUGCA__GUCAGAUUUUCAACUUUUCUUGCCAGCGAAAGUUGGCAAUAACAAUGCUUUUCCGGCAUGCCAGUAGGAAAAGAGAUAGCCAUAGAUUGACAGCUGGCAGCAGAGAGAGAUG
..(((...(((................((((((((....))))))))........(((((((.((......)).))))))).))).((((............)))).))).......... (-30.14 = -30.00 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:45 2006