[Genome] Divergence calculation

[Kayla Smith]

Hello Chunhua,

You can find some information about the repeatMask track here:
http://genome.ucsc.edu/cgi-bin/hgTrackUi?g=rmsk

For more technical information, I recommend contacting the creaters of 
the RepeatMasker software at http://www.repeatmasker.org

I hope this points you in the right direction.  If you have any further 
questions about the Genome Browser, please don't hesitate to contact us 
again.

Kayla Smith
UCSC Genome Bioinformatics Group


Qin, Chunhua wrote:
> Hi,
> 
> How were the divergence numbers (milliDiv, milliDel, milliIns in the
> following table) for the repetitive elements generated? Can we assume
> the milliDiv is the "sum" of milliDel and milliIns? If yes, why some
> elements showed milliDiv>0 when both milliDel and milliIns are equal to
> 0 in the example below?
> 
> Thanks,
> 
> C.Q.  
> 
> 
> #filter: chr12_rmsk.repName like 'IAPLTR%'
> #milliDiv	milliDel	milliIns	genoName
> genoStart	genoEnd	repName
> 28	0	44	chr12	48201400	48201742	IAPLTR2b
> 124	82	16	chr12	48518724	48519028	IAPLTR4
> 5	0	0	chr12	49633169	49633536
> IAPLTR1_Mm
> 8	0	0	chr12	49639937	49640304
> IAPLTR1_Mm
> 24	0	0	chr12	50095777	50096114
> IAPLTR1a_Mm
> 21	0	0	chr12	50102541	50102878
> IAPLTR1a_Mm
> 64	30	20	chr12	51010569	51010873	IAPLTR2b
> 32	12	10	chr12	51440316	51440726	IAPLTR2a
> 112	15	6	chr12	52554531	52554865
> IAPLTR1a_Mm
> 118	50	44	chr12	52655062	52655221
> IAPLTR4_I
> 12	0	0	chr12	52682164	52682490	IAPLTR3
> 
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