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Smilelover
10-01-2016, 12:02 AM
My mtdna came as R2
Its just mtdna plus
Not full sequence

Any information about it?

I dont have any match at all

Does upgrading gives any advantages or will show matches ..

Thank you

MfA
10-02-2016, 10:00 AM
Could be R2a, R2c by more detailed testing

http://www.ianlogan.co.uk/sequences_by_group/r2_genbank_sequences.htm

Smilelover
10-02-2016, 02:30 PM
There are already some samples from south arabia .. so it could be as you said

thank you

Smilelover
12-02-2016, 02:59 PM
I upgraded my mtdna to full sequence
But the result is the same R2
No match .. no ancestral region
And in one mutation there is Y ( not TAGC)
What is this .. DNA base
I cannot enter this in mitosearch

evon
12-02-2016, 04:38 PM
Have your also tried James lick mtDNA tool? Just google it and you will see it easy enough.. It could very well be that you are only R2, there are many who are as an example just H...But I suspect as more people from your ancestral region get tested you might eventually be assigned to a sub-clade of R2 as they update the Pholy tree..

Smilelover
12-02-2016, 08:54 PM
Have your also tried James lick mtDNA tool? Just google it and you will see it easy enough.. It could very well be that you are only R2, there are many who are as an example just H...But I suspect as more people from your ancestral region get tested you might eventually be assigned to a sub-clade of R2 as they update the Pholy tree..



Thank you very much
Here is my result using this tool

Markers found (shown as differences to rCRS):

HVR2: 73G 146C 152C 263G (309.1C) (315.1C) 573.1C 573.2C 573.3C 573.4C 573.5C
CR: 750G 1438G 2706G 4216C 7028T 7657C 8473C 8860G 8994A 9861C 9932A 10685A 11719A 12654G 12793C 13500C 14185G 14305A 14766T 15326G
HVR1: 16071T 16185T 16286Y 16320T 16321T (16519C)

Best mtDNA Haplogroup Matches:

1) R2c

Defining Markers for haplogroup R2c:
HVR2: 73G 146C 152C 263G 573.1C
CR: 750G 1438G 2706G 4216C 7028T 7657C 8473C 8860G 8994A 9861C 9932A 10685A 11719A 12654G 12793C 13500C 14185G 14305A 14766T 15326G
HVR1: 16071T 16320T
Marker path from rCRS to haplogroup R2c (plus extra markers):
H2a2a1(rCRS) ⇨ 263G ⇨ H2a2a ⇨ 8860G 15326G ⇨ H2a2 ⇨ 750G ⇨ H2a ⇨ 4769G ⇨ H2 ⇨ 1438G ⇨ H ⇨ 2706G 7028T ⇨ HV ⇨ 14766T ⇨ R0 ⇨ 73G 11719A ⇨ R ⇨ 4216C ⇨ R2'JT ⇨ 152C 4769A 7657C 8473C 9932A 10685A 12654G 14305A 16071T ⇨ R2 ⇨ 13500C ⇨ R2(T13500C) ⇨ 146C 573.1C 8994A 9861C 12793C 14185G 16320T ⇨ R2c ⇨ (309.1C) (315.1C) 573.2C 573.3C 573.4C 573.5C 16185T 16286Y 16321T (16519C)

Good Match! Your results also had extra markers for this haplogroup:
Matches(28): 73G 146C 152C 263G 573.1C 750G 1438G 2706G 4216C 4769A 7028T 7657C 8473C 8860G 8994A 9861C 9932A 10685A 11719A 12654G 12793C 13500C 14185G 14305A 14766T 15326G 16071T 16320T
Extras(7): (309.1C) (315.1C) 573.2C 573.3C 573.4C 573.5C 16185T 16286Y 16321T (16519C)

2) R2(T13500C)

Defining Markers for haplogroup R2(T13500C):
HVR2: 73G 152C 263G
CR: 750G 1438G 2706G 4216C 7028T 7657C 8473C 8860G 9932A 10685A 11719A 12654G 13500C 14305A 14766T 15326G
HVR1: 16071T
Marker path from rCRS to haplogroup R2(T13500C) (plus extra markers):
H2a2a1(rCRS) ⇨ 263G ⇨ H2a2a ⇨ 8860G 15326G ⇨ H2a2 ⇨ 750G ⇨ H2a ⇨ 4769G ⇨ H2 ⇨ 1438G ⇨ H ⇨ 2706G 7028T ⇨ HV ⇨ 14766T ⇨ R0 ⇨ 73G 11719A ⇨ R ⇨ 4216C ⇨ R2'JT ⇨ 152C 4769A 7657C 8473C 9932A 10685A 12654G 14305A 16071T ⇨ R2 ⇨ 13500C ⇨ R2(T13500C) ⇨ 146C (309.1C) (315.1C) 573.1C 573.2C 573.3C 573.4C 573.5C 8994A 9861C 12793C 14185G 16185T 16286Y 16320T 16321T (16519C)

Good Match! Your results also had extra markers for this haplogroup:
Matches(21): 73G 152C 263G 750G 1438G 2706G 4216C 4769A 7028T 7657C 8473C 8860G 9932A 10685A 11719A 12654G 13500C 14305A 14766T 15326G 16071T
Extras(14): 146C (309.1C) (315.1C) 573.1C 573.2C 573.3C 573.4C 573.5C 8994A 9861C 12793C 14185G 16185T 16286Y 16320T 16321T (16519C)

3) R2

Defining Markers for haplogroup R2:
HVR2: 73G 152C 263G
CR: 750G 1438G 2706G 4216C 7028T 7657C 8473C 8860G 9932A 10685A 11719A 12654G 14305A 14766T 15326G
HVR1: 16071T
Marker path from rCRS to haplogroup R2 (plus extra markers):
H2a2a1(rCRS) ⇨ 263G ⇨ H2a2a ⇨ 8860G 15326G ⇨ H2a2 ⇨ 750G ⇨ H2a ⇨ 4769G ⇨ H2 ⇨ 1438G ⇨ H ⇨ 2706G 7028T ⇨ HV ⇨ 14766T ⇨ R0 ⇨ 73G 11719A ⇨ R ⇨ 4216C ⇨ R2'JT ⇨ 152C 4769A 7657C 8473C 9932A 10685A 12654G 14305A 16071T ⇨ R2 ⇨ 146C (309.1C) (315.1C) 573.1C 573.2C 573.3C 573.4C 573.5C 8994A 9861C 12793C 13500C 14185G 16185T 16286Y 16320T 16321T (16519C)

Good Match! Your results also had extra markers for this haplogroup:
Matches(20): 73G 152C 263G 750G 1438G 2706G 4216C 4769A 7028T 7657C 8473C 8860G 9932A 10685A 11719A 12654G 14305A 14766T 15326G 16071T
Extras(15): 146C (309.1C) (315.1C) 573.1C 573.2C 573.3C 573.4C 573.5C 8994A 9861C 12793C 13500C 14185G 16185T 16286Y 16320T 16321T (16519C)

3) R2(T13500C T195C)

Defining Markers for haplogroup R2(T13500C T195C):
HVR2: 73G 152C 195C 263G
CR: 750G 1438G 2706G 4216C 7028T 7657C 8473C 8860G 9932A 10685A 11719A 12654G 13500C 14305A 14766T 15326G
HVR1: 16071T
Marker path from rCRS to haplogroup R2(T13500C T195C) (plus extra markers):
H2a2a1(rCRS) ⇨ 263G ⇨ H2a2a ⇨ 8860G 15326G ⇨ H2a2 ⇨ 750G ⇨ H2a ⇨ 4769G ⇨ H2 ⇨ 1438G ⇨ H ⇨ 2706G 7028T ⇨ HV ⇨ 14766T ⇨ R0 ⇨ 73G 11719A ⇨ R ⇨ 4216C ⇨ R2'JT ⇨ 152C 4769A 7657C 8473C 9932A 10685A 12654G 14305A 16071T ⇨ R2 ⇨ 13500C ⇨ R2(T13500C) ⇨ 195C ⇨ R2(T13500C T195C) ⇨ 146C (309.1C) (315.1C) 573.1C 573.2C 573.3C 573.4C 573.5C 8994A 9861C 12793C 14185G 16185T 16286Y 16320T 16321T (16519C)

Imperfect Match. Your results contained differences with this haplogroup:
Matches(21): 73G 152C 263G 750G 1438G 2706G 4216C 4769A 7028T 7657C 8473C 8860G 9932A 10685A 11719A 12654G 13500C 14305A 14766T 15326G 16071T
Mismatches(1): 195T
Extras(14): 146C (309.1C) (315.1C) 573.1C 573.2C 573.3C 573.4C 573.5C 8994A 9861C 12793C 14185G 16185T 16286Y 16320T 16321T (16519C)

Smilelover
12-02-2016, 08:56 PM
So there is 3 possibilities
Being in first that i am R2c

Already R2c there is results from south arabia as dear Mr MfA expected earlier

MfA
12-03-2016, 06:56 PM
So there is 3 possibilities
Being in first that i am R2c

Already R2c there is results from south arabia as dear Mr MfA expected earlier

You can upload your mtdna file to https://opensnp.org/. In a few days you'll be in genbank's R list.

Smilelover
12-04-2016, 05:19 AM
You can upload your mtdna file to https://opensnp.org/. In a few days you'll be in genbank's R list.

i tried to upload it but i see that most of their work is on autosomal test

the accepted format is
Filetype
23andme-format
Genes for Good-format
FamilyTreeDNA, Illumina-Format
AncestryDNA data
23andMe-EXOME, VCF-format
IYG-format (EBI genotyping participants)
deCODEme-format


where to upload the fasta format of mtdna

MfA
12-04-2016, 07:23 AM
i tried to upload it but i see that most of their work is on autosomal test

the accepted format is
Filetype
23andme-format
Genes for Good-format
FamilyTreeDNA, Illumina-Format
AncestryDNA data
23andMe-EXOME, VCF-format
IYG-format (EBI genotyping participants)
deCODEme-format


where to upload the fasta format of mtdna
You can send then an email and ask.

My filetype is still missing, what can I do?
We are always interested in adding more data. If your company is missing up to now it is, because we did not have an example-file to optimize our parser on it. But if you contact us at parsing@opensnp.org and send us your file we can fix this, so that all customers of the DTC company of your choice can participate.


You can also try to submit your file directly to the genbank: http://www.ianlogan.co.uk/submission.htm

Smilelover
12-05-2016, 02:03 PM
You can send then an email and ask.

My filetype is still missing, what can I do?
We are always interested in adding more data. If your company is missing up to now it is, because we did not have an example-file to optimize our parser on it. But if you contact us at parsing@opensnp.org and send us your file we can fix this, so that all customers of the DTC company of your choice can participate.


You can also try to submit your file directly to the genbank: http://www.ianlogan.co.uk/submission.htm

thank you
i submit it directly to Genbank
whats the benefit from that ??

evon
12-05-2016, 04:53 PM
thank you
i submit it directly to Genbank
whats the benefit from that ??

I did it directly myself a few years ago, the only benefit I have found so far is that I am now included when the samples are categorize, such as by Ian Logan on his page etc (Makes it easy to follow any new developments concerning my mtDNA branch).. I am not yet included in the http://www.phylotree.org/ but maybe I will be in the future as they get more samples?

Smilelover
12-30-2016, 08:00 AM
I found this article

Author(s): Al‐Abri, A., Podgorná, E., Rose, J.I., Pereira, L., Mulligan, C.J., Silva, N.M., Bayoumi, R., Soares, P. and Černý, V.
Journal: American Journal of Physical Anthropology
Issue/Volume: 149(2)
Page(s): 291-298
Year: 2012

Abstract:

It is now known that several population movements have taken place at different times throughout southern Arabian prehistory. One of the principal questions under debate is if the Early Holocene peopling of southern Arabia was mainly due to input from the Levant during the Pre-Pottery Neolithic B, to the expansion of an autochthonous population, or some combination of these demographic processes. Since previous genetic studies have not been able to include all parts of southern Arabia, we have helped fill this lacuna by collecting new population datasets from Oman (Dhofar) and Yemen (Al-Mahra and Bab el-Mandab). We identified several new haplotypes belonging to haplogroup R2 and generated its whole genome mtDNA tree with age estimates undertaken by different methods. R2, together with other considerably frequent southern Arabian mtDNA haplogroups (R0a, HV1, summing up more than 20% of the South Arabian gene pool) were used to infer the past effective population size through Bayesian skyline plots. These data indicate that the southern Arabian population underwent a large expansion already some 12 ka. A founder analysis of these haplogroups shows that this expansion is largely attributed to demographic input from the Near East. These results support thus the spread of a population coming from the north, but at a significantly earlier date than presently considered by archaeologists. Our data suggest that some of the mtDNA lineages found in southern Arabia have persisted in the region since the end of the Last Ice Age.