Locus 6074

Sequence ID	3R_DroMel_CAF1
Location	15,950,233 – 15,950,368
Length	135
Max. P	0.871788

overview

Window 8

Location	15,950,233 – 15,950,331
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	88.88
Mean single sequence MFE	-22.46
Consensus MFE	-17.31
Energy contribution	-18.31
Covariance contribution	1.00
Combinations/Pair	1.09
Mean z-score	-1.99
Structure conservation index	0.77
SVM decision value	0.87
SVM RNA-class probability	0.871788
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15950233 98 - 27905053
GGUCACUCAGAGAGUUUGCAGUGUGACAUGCAGCAUUUUAUAUUCAGUCACAUGCAAAUCUCUGAACUUCCAAUUAAAAGUGAUAUCAACACAUUUAG
((....(((((((.((((((.((((((...................)))))))))))))))))))....))...((((.(((.......))).)))). ( -27.51)
>DroSec_CAF1 76570 98 - 1
GGUCACUCAGAGAGUUUGCAGUGUGACAUGCAGCAUUUUAUAUUCAGUCAGAUGCAAAUCUCUGAACUUCCAAUUAAAAGUGAUAUCAACACAUUUAG
((....(((((((.((((((.(.((((...................)))).))))))))))))))....))...((((.(((.......))).)))). ( -23.61)
>DroSim_CAF1 51910 98 - 1
GGUCACUCAGAAAGUUUGCAGUGUGACAUGCAGCAUUUUAUAUUCAGUCAGAUGCAAAUCUCUGAACUUCCAAUUAAAAGUGAUAUCAACACAUUUAG
((....(((((..(((((((.(.((((...................)))).)))))))).)))))....))...((((.(((.......))).)))). ( -19.41)
>DroEre_CAF1 51588 86 - 1
GGUCACUCAGAGCGUUUGC------------AGCAUUUUAUACUCAGUCAUAUGCGCAUCUCUGAACUUCCAAUUAAAAGUGAUAUCAACACAUUUAC
((....((((((....(((------------.((((...............))))))).))))))....))...((((.(((.......))).)))). ( -16.76)
>DroYak_CAF1 80351 98 - 1
GGUCAGUCAGAGCGUUUGCAGUGUGACAUGCAGCAUUUUAUACUGAGUCAAAUGCGAGUCUCUGAACUUCCAAUUAAAAGUGAUAUCAACACAGUCAC
((....((((((.(((((((...((((...(((.........))).))))..)))))))))))))....))........(((((.........))))) ( -25.00)
>consensus
GGUCACUCAGAGAGUUUGCAGUGUGACAUGCAGCAUUUUAUAUUCAGUCAGAUGCAAAUCUCUGAACUUCCAAUUAAAAGUGAUAUCAACACAUUUAG
((....((((((.(((((((...((((...................))))..)))))))))))))....))........(((.......)))...... (-17.31 = -18.31 +   1.00)

alignment

secondary structure

dotplot

Window 9

Location	15,950,265 – 15,950,368
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	87.38
Mean single sequence MFE	-27.00
Consensus MFE	-16.99
Energy contribution	-21.27
Covariance contribution	4.28
Combinations/Pair	1.07
Mean z-score	-3.06
Structure conservation index	0.63
SVM decision value	0.61
SVM RNA-class probability	0.799603
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15950265 103 + 27905053
UUCAGAGAUUUGCAUGUGACUGAAUAUAAAAUGCUGCAUGUCACACUGCAAACUCUCUGAGUGACCACAGAUAAAGCUACGGUUUUGUUUCACAAUUCCUCAC
.(((((((((((((((((((((..............)).)))))).)))))).)))))))((((.....((((((((....)))))))))))).......... ( -34.74)
>DroSec_CAF1 76602 103 + 1
UUCAGAGAUUUGCAUCUGACUGAAUAUAAAAUGCUGCAUGUCACACUGCAAACUCUCUGAGUGACCACAGAUAAAGCUACGGUUUUGUUUCACAAUUCCUCAC
.(((((((((((((..((((((..............)).))))...)))))).)))))))((((.....((((((((....)))))))))))).......... ( -29.44)
>DroSim_CAF1 51942 103 + 1
UUCAGAGAUUUGCAUCUGACUGAAUAUAAAAUGCUGCAUGUCACACUGCAAACUUUCUGAGUGACCACAGAUAAAGCUACGGUUUUGUUUCACAAUUCCUCAC
.(((((((((((((..((((((..............)).))))...)))))).)))))))((((.....((((((((....)))))))))))).......... ( -26.84)
>DroEre_CAF1 51620 91 + 1
UUCAGAGAUGCGCAUAUGACUGAGUAUAAAAUGCU------------GCAAACGCUCUGAGUGACCGCAAAUAAAGCUACGGUUUUGUUUCACAAUUUGCCAC
.((((((.(((((((...............)))).------------)))....))))))((((.....((((((((....)))))))))))).......... ( -23.46)
>DroYak_CAF1 80383 103 + 1
UUCAGAGACUCGCAUUUGACUCAGUAUAAAAUGCUGCAUGUCACACUGCAAACGCUCUGACUGACCACGGAUAAAGCUACGAUUUUGUUUCACAAUUUACCAC
.((((((....(((..((((.((((((...))))))...))))...))).....))))))........((.((((.....((.......))....)))))).. ( -20.50)
>consensus
UUCAGAGAUUUGCAUCUGACUGAAUAUAAAAUGCUGCAUGUCACACUGCAAACUCUCUGAGUGACCACAGAUAAAGCUACGGUUUUGUUUCACAAUUCCUCAC
.(((((((((((((..((((...................))))...)))))).)))))))((((.....((((((((....)))))))))))).......... (-16.99 = -21.27 +   4.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:02 2006