Locus 2384

Sequence ID	3L_DroMel_CAF1
Location	6,693,105 – 6,693,225
Length	120
Max. P	0.985396

overview

Window 3

Location	6,693,105 – 6,693,195
Length	90
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	85.71
Mean single sequence MFE	-19.77
Consensus MFE	-14.49
Energy contribution	-14.60
Covariance contribution	0.11
Combinations/Pair	1.05
Mean z-score	-3.10
Structure conservation index	0.73
SVM decision value	0.49
SVM RNA-class probability	0.758410
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6693105 90 - 23771897
CAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--G-CAAAUCAAACAAGAAAAGCGUAACCAAGCACAUA----AGCAAA
..(((...(((((((((.((((((((....))).)))))..))))))))--)-...)))...........((........)).....----...... ( -20.70)
>DroPse_CAF1 68113 88 - 1
CCUCGCGCCAAUAAGCAGUGAAAGUGUCAAUACAUUUCGAGUGCUUAUU--GCCAAAUCAAAUACGAUAAACAAA---AAGCCAACA----AGCAAA
....(((.(((((((((.(..((((((....))))))..).))))))))--).)..(((......))).......---.........----.))... ( -18.60)
>DroSec_CAF1 69673 90 - 1
CAGAUCGCAAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--G-CAAUUCAAACAAGAAAAGCGUAACCAAGCAUAUA----AGCAAA
......((.((((((((.((((((((....))).)))))..))))))))--(-(..(((......)))..))........)).....----...... ( -19.70)
>DroSim_CAF1 88187 90 - 1
CAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--G-CAAAUCAAACAAGAAAAGCGUAACCAAGCAUAUA----AGCAAA
..(((...(((((((((.((((((((....))).)))))..))))))))--)-...)))...........((........)).....----...... ( -20.70)
>DroAna_CAF1 91362 95 - 1
C-GAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUUCGC-CAAAUCAAACAAGAAAAGCGCAACCAAGCAAAUAACCAAGCAAA
.-(((.((.((((((((.((((((((....))).)))))..)))))))).))-...)))...........((........))............... ( -20.30)
>DroPer_CAF1 68244 88 - 1
CCUCGCGCCAAUAAGCAGUGAAAGUGUCAAUACAUUUCGAGUGCUUAUU--GCCAAAUCAAAUACGAUAAACAAA---AAGCCAACA----AGCAAA
....(((.(((((((((.(..((((((....))))))..).))))))))--).)..(((......))).......---.........----.))... ( -18.60)
>consensus
CAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU__G_CAAAUCAAACAAGAAAAGCGUAACCAAGCAAAUA____AGCAAA
......((.((((((((.((((((((....))).)))))..)))))))).....................((........))..........))... (-14.49 = -14.60 +   0.11)

alignment

secondary structure

dotplot

Window 4

Location	6,693,130 – 6,693,225
Length	95
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	87.25
Mean single sequence MFE	-21.78
Consensus MFE	-18.74
Energy contribution	-18.60
Covariance contribution	-0.14
Combinations/Pair	1.04
Mean z-score	-3.14
Structure conservation index	0.86
SVM decision value	2.01
SVM RNA-class probability	0.985396
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6693130 95 - 23771897
CGAUUUUCUUGAAAAACAA---------AACCACCCAGCCAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--GCAAAUCAAACAAGAA
.....((((((........---------.........((......))(((((((((.((((((((....))).)))))..))))))))--).........)))))) ( -21.80)
>DroSec_CAF1 69698 95 - 1
CGAUUUUCUUGAAAAACAA---------AACCACCCAGUCAGAUCGCAAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--GCAAUUCAAACAAGAA
.....((((((........---------.........(......)((((.((((((.((((((((....))).)))))..))))))))--))........)))))) ( -20.80)
>DroSim_CAF1 88212 95 - 1
CGAUUUUCUUGAAAAACAA---------AACCACCCAGCCAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--GCAAAUCAAACAAGAA
.....((((((........---------.........((......))(((((((((.((((((((....))).)))))..))))))))--).........)))))) ( -21.80)
>DroEre_CAF1 81628 88 - 1
CGAUUUUCUUGAAA----------------ACCCCCAGCCAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--GCAAAUCAAACAAGAA
.....((((((...----------------.......((......))(((((((((.((((((((....))).)))))..))))))))--).........)))))) ( -21.80)
>DroYak_CAF1 82582 104 - 1
CGAUUUUCUUGAAAAAAAAUCAAAAAAUAAAAUCCCAGCCAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU--GCAAAUCAAACAAGAA
.....((((((..........................((......))(((((((((.((((((((....))).)))))..))))))))--).........)))))) ( -21.80)
>DroAna_CAF1 91391 91 - 1
CGAAUUUCUUGUCCA--------------GUUCCCCAGCC-GAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUUCGCCAAAUCAAACAAGAA
.....(((((((...--------------((......)).-(((.((.((((((((.((((((((....))).)))))..)))))))).))...)))..))))))) ( -22.70)
>consensus
CGAUUUUCUUGAAAAACAA_________AACCACCCAGCCAGAUCGCCAAUAAGCAGUGAAAGUGUCAACACAUUUCGAGUGCUUAUU__GCAAAUCAAACAAGAA
.....((((((..........................((......)).((((((((.((((((((....))).)))))..))))))))............)))))) (-18.74 = -18.60 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:56 2006