Locus 5881

Sequence ID	3L_DroMel_CAF1
Location	15,827,247 – 15,827,337
Length	90
Max. P	0.932489

overview

Window 5

Location	15,827,247 – 15,827,337
Length	90
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.80
Mean single sequence MFE	-32.14
Consensus MFE	-22.85
Energy contribution	-23.72
Covariance contribution	0.86
Combinations/Pair	1.21
Mean z-score	-2.60
Structure conservation index	0.71
SVM decision value	1.22
SVM RNA-class probability	0.932489
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15827247 90 + 23771897
GGCUUAUGCAUAAAUCAUCGU------GUAUGAUGUGACCACCGCUCCACGUCAUCAUCAUCAUGAUCCCAGGGAUGUGGAG-UGUGCCACAAGCCG-----------------------
(((((((((((........))------))))))((((..(((.(((((((((((((((....)))))(....))))))))))-)))).)))).))).----------------------- ( -33.90)
>DroPse_CAF1 33917 120 + 1
GGCUUAUGCAUAAAUCAUCGUGUUCUCGUAUGAUGUGGCCAACUCUCCACGUCAUCGUCAUCAUCAUCUCACAGACGAGGGCACAGGGCACAGGCCACAGGGCACAGGACACUAGGCACC
(((((.(((..........(((((((((.(((((((((........))))))))))(((..............)))))))))))...))).)))))...((((..((....))..)).)) ( -37.96)
>DroSec_CAF1 34615 90 + 1
GGCUUAUGCAUAAAUCAUCUU------GUAUGAUGUGACCACCGCUCCACGUCAUCAUCAUCAUGAUCCCAGGGAUGUGGAG-UGUGCCACAAGCCG-----------------------
((((((((((..........)------))))))((((..(((.(((((((((((((((....)))))(....))))))))))-)))).)))).))).----------------------- ( -32.40)
>DroSim_CAF1 35813 90 + 1
GGCUUAUGCAUAAAUCAUCGU------GUAUGAUGUGACCACCGCUCCACGUCAUCAUCAUCAUGAUCCCAGGGAUGUGGAG-UGUGCCACAAGCCG-----------------------
(((((((((((........))------))))))((((..(((.(((((((((((((((....)))))(....))))))))))-)))).)))).))).----------------------- ( -33.90)
>DroEre_CAF1 33542 88 + 1
GGCUUAUGCAUAAAUCAUCA-------GCGUGAUGUGACCACCGCUCCACGUCAUCAUCAUCACGAUCCCAGGGAUGUGGAG-U-UGCCACAAGCCG-----------------------
(((((..(((.....((((.-------....))))........((((((((((...(((.....)))......)))))))))-)-)))...))))).----------------------- ( -27.70)
>DroYak_CAF1 75848 90 + 1
GGCUUAUGCAUAAAUCAUCAU------GUAUGAUGUGACCACCGCUCCACGUCAUCAUCAUCAUGAUCCAAGGGAUGUGAAG-UUUGCCACAAGCCG-----------------------
(((((..(((.(..(((((((------(.((((((((((...........)))).))))))))))((((...))))))))..-).)))...))))).----------------------- ( -27.00)
>consensus
GGCUUAUGCAUAAAUCAUCGU______GUAUGAUGUGACCACCGCUCCACGUCAUCAUCAUCAUGAUCCCAGGGAUGUGGAG_UGUGCCACAAGCCG_______________________
(((((.((((((...((((((........)))))).........(((((((((...(((.....)))......))))))))).)))).)).)))))........................ (-22.85 = -23.72 +   0.86)

alignment

secondary structure

dotplot

Window 6

Location	15,827,247 – 15,827,337
Length	90
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.80
Mean single sequence MFE	-30.62
Consensus MFE	-23.47
Energy contribution	-24.08
Covariance contribution	0.61
Combinations/Pair	1.12
Mean z-score	-1.34
Structure conservation index	0.77
SVM decision value	0.28
SVM RNA-class probability	0.665442
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15827247 90 - 23771897
-----------------------CGGCUUGUGGCACA-CUCCACAUCCCUGGGAUCAUGAUGAUGAUGACGUGGAGCGGUGGUCACAUCAUAC------ACGAUGAUUUAUGCAUAAGCC
-----------------------.((((((((.((..-..((((.(((.((..(((((....)))))..)).)))...))))...((((....------..)))).....)))))))))) ( -30.60)
>DroPse_CAF1 33917 120 - 1
GGUGCCUAGUGUCCUGUGCCCUGUGGCCUGUGCCCUGUGCCCUCGUCUGUGAGAUGAUGAUGACGAUGACGUGGAGAGUUGGCCACAUCAUACGAGAACACGAUGAUUUAUGCAUAAGCC
.((((...((((.(((((...(((((((...((((..((.(.(((((..............))))).).))..).).)).)))))))...))).)).))))((....))..))))..... ( -31.94)
>DroSec_CAF1 34615 90 - 1
-----------------------CGGCUUGUGGCACA-CUCCACAUCCCUGGGAUCAUGAUGAUGAUGACGUGGAGCGGUGGUCACAUCAUAC------AAGAUGAUUUAUGCAUAAGCC
-----------------------.((((((((.((..-..((((.(((.((..(((((....)))))..)).)))...))))...((((....------..)))).....)))))))))) ( -30.60)
>DroSim_CAF1 35813 90 - 1
-----------------------CGGCUUGUGGCACA-CUCCACAUCCCUGGGAUCAUGAUGAUGAUGACGUGGAGCGGUGGUCACAUCAUAC------ACGAUGAUUUAUGCAUAAGCC
-----------------------.((((((((.((..-..((((.(((.((..(((((....)))))..)).)))...))))...((((....------..)))).....)))))))))) ( -30.60)
>DroEre_CAF1 33542 88 - 1
-----------------------CGGCUUGUGGCA-A-CUCCACAUCCCUGGGAUCGUGAUGAUGAUGACGUGGAGCGGUGGUCACAUCACGC-------UGAUGAUUUAUGCAUAAGCC
-----------------------.((((((((.((-.-..((((.(((.((..(((((....)))))..)).)))...))))...((((....-------.)))).....)))))))))) ( -30.60)
>DroYak_CAF1 75848 90 - 1
-----------------------CGGCUUGUGGCAAA-CUUCACAUCCCUUGGAUCAUGAUGAUGAUGACGUGGAGCGGUGGUCACAUCAUAC------AUGAUGAUUUAUGCAUAAGCC
-----------------------.((((((((.((..-..(((..(((...)))(((((((((((.((((...........)))))))))).)------)))))))....)))))))))) ( -29.40)
>consensus
_______________________CGGCUUGUGGCACA_CUCCACAUCCCUGGGAUCAUGAUGAUGAUGACGUGGAGCGGUGGUCACAUCAUAC______ACGAUGAUUUAUGCAUAAGCC
........................((((((((........((((.(((.((..(((((....)))))..)).)))...))))...((((............)))).......)))))))) (-23.47 = -24.08 +   0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:49 2006