genome.fa.s11.2.7.7.80.10.50.1000.63.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr12
Parameters: 2 7 7 80 10 50 1000
Length:  24583705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   

This is table  63  of  75  ( 8944 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20092807--20092840	17	2.0	17	100	0	68	52	23	17	5	1.66
20093508--20093565	30	1.9	30	89	0	89	10	27	37	24	1.88
20096664--20096698	2	17.5	2	93	0	61	48	2	0	48	1.16
20117220--20117285	32	2.1	32	85	5	89	40	6	15	37	1.72
20119356--20119411	29	1.9	29	82	7	69	32	3	10	53	1.53
20119496--20119612	54	2.2	54	95	4	211	48	1	8	41	1.44
20122175--20122221	22	2.1	23	84	7	62	63	4	4	27	1.31
20124973--20125054	24	3.4	24	79	3	85	12	43	6	37	1.67
20126003--20126028	7	3.7	7	100	0	52	61	0	0	38	0.96
20126987--20127023	17	2.2	17	90	4	58	51	0	2	45	1.15
20128737--20128770	16	2.0	16	88	11	50	58	0	0	41	0.98
20128967--20128997	5	6.2	5	100	0	62	38	0	0	61	0.96
20129480--20129513	17	2.0	17	100	0	68	23	11	17	47	1.81
20129622--20129661	19	2.1	19	86	9	55	50	2	17	30	1.59
20130655--20130688	15	2.3	15	94	0	59	38	20	0	41	1.53
20134480--20134513	16	2.1	16	88	0	50	32	23	11	32	1.91
20134323--20134681	188	1.9	188	98	1	693	45	13	9	32	1.75
20136139--20136266	61	2.1	61	79	7	134	38	3	11	46	1.56
20144938--20144979	11	3.8	11	78	9	50	54	0	2	42	1.13
20144934--20144978	22	2.1	22	87	4	65	57	0	2	40	1.11
20157814--20157867	21	2.6	21	81	0	63	29	31	9	29	1.88
20166135--20166166	16	2.0	16	93	0	55	25	9	12	53	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20185346--20185391	15	3.1	15	77	0	56	23	10	50	15	1.75
20189027--20189055	10	3.0	10	95	5	51	72	0	0	27	0.85
20193598--20193649	24	2.2	24	86	6	70	50	5	3	40	1.45
20200756--20200803	7	6.3	7	81	13	51	64	2	4	29	1.23
20200755--20200801	25	2.0	23	87	8	67	63	2	4	29	1.25
20203614--20203655	17	2.6	16	85	14	52	33	2	0	64	1.07
20207622--20207671	22	2.3	21	86	3	64	62	2	4	32	1.25
20209242--20209284	18	2.5	17	88	7	68	69	0	0	30	0.88
20214969--20215020	24	2.2	24	89	0	77	53	7	3	34	1.48
20216786--20216819	13	2.5	13	90	4	50	61	11	8	17	1.54
20217977--20218515	275	2.0	275	96	0	997	38	13	21	26	1.90
20221934--20222000	34	1.9	35	87	3	100	32	8	11	46	1.72
20223078--20223130	27	2.0	27	100	0	106	37	7	41	13	1.72
20226387--20226439	16	3.3	16	74	10	54	15	33	1	49	1.55
20232099--20232228	64	2.0	64	100	0	260	44	16	10	27	1.81
20247964--20248030	34	1.9	35	87	3	100	32	8	11	46	1.72
20248636--20248679	8	5.8	8	84	10	56	34	0	65	0	0.93
20248639--20248675	4	9.8	4	82	11	51	29	0	70	0	0.88
20248630--20248684	22	2.5	22	85	2	76	36	0	63	0	0.95
20258072--20258121	20	2.5	20	83	6	66	46	16	12	26	1.81
20268389--20268424	18	2.0	18	94	0	63	27	41	11	19	1.85
20269971--20270017	15	3.1	15	71	17	51	44	2	2	51	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20270998--20271053	12	4.2	13	74	17	51	12	12	1	73	1.18
20272380--20272415	17	2.1	18	89	5	56	50	0	0	50	1.00
20272598--20272640	13	3.2	13	80	3	50	27	25	11	34	1.91
20272594--20272643	7	7.3	7	78	13	50	30	24	14	32	1.94
20273095--20273187	21	4.4	21	67	14	57	63	1	2	33	1.13
20273175--20273238	32	2.0	32	84	6	85	53	0	3	43	1.16
20277910--20277950	10	4.0	10	87	3	55	34	0	19	46	1.50
20282496--20282599	51	2.0	51	100	0	208	40	7	19	32	1.80
20285694--20285742	17	2.9	17	75	0	53	69	0	28	2	1.00
20286805--20286875	21	3.4	21	82	0	88	15	15	35	33	1.89
20289341--20289455	27	4.3	27	79	5	90	28	24	12	34	1.91
20289360--20289455	27	3.6	27	86	0	120	30	21	13	34	1.92
20292133--20292220	25	3.2	25	64	27	61	45	22	7	23	1.79
20292987--20293104	45	2.6	45	89	4	168	28	22	16	32	1.95
20304850--20305185	167	2.0	168	99	0	665	39	7	8	44	1.63
20307842--20308114	139	2.0	139	83	4	354	25	22	15	36	1.93
20308675--20308748	35	2.1	35	82	9	89	24	8	0	67	1.17
20309184--20309251	19	3.5	19	84	15	86	55	7	1	35	1.37
20309221--20309288	18	3.8	18	71	7	50	58	2	0	38	1.13
20310542--20310579	15	2.4	17	82	13	53	65	0	13	21	1.26
20314026--20314092	27	2.5	27	95	0	116	31	25	32	10	1.89
20314042--20314086	15	3.2	15	72	18	51	26	31	33	8	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20314162--20314205	21	2.1	21	95	0	79	29	0	11	59	1.32
20314439--20314572	19	6.7	19	72	20	105	54	13	0	32	1.39
20314439--20314498	21	3.0	21	95	4	106	55	15	0	30	1.41
20314568--20314684	27	4.3	27	98	0	225	11	32	24	30	1.92
20315213--20315246	12	2.7	13	86	9	52	47	0	2	50	1.16
20319466--20319644	51	3.4	51	85	6	207	34	13	23	28	1.93
20319511--20319624	57	2.0	57	92	1	192	31	14	25	28	1.95
20319523--20319644	57	2.1	58	90	1	192	35	12	23	28	1.91
20322308--20322349	13	3.2	13	80	10	50	61	9	2	26	1.39
20322764--20322804	18	2.3	18	87	4	57	80	2	7	9	0.99
20323648--20323700	27	2.0	27	85	3	72	28	1	5	64	1.27
20325998--20326045	13	3.5	13	82	17	62	6	18	2	72	1.15
20327161--20327205	20	2.3	19	85	11	56	51	2	2	44	1.26
20327152--20327205	19	2.8	18	78	13	63	51	1	1	44	1.22
20328543--20328607	28	2.4	27	87	10	96	29	1	1	67	1.09
20328590--20328629	11	3.6	11	87	9	55	40	0	2	57	1.12
20328590--20328624	12	2.9	12	87	12	54	45	0	2	51	1.16
20328840--20328904	34	1.9	34	83	0	85	26	12	15	46	1.81
20340324--20340408	9	9.4	9	90	0	116	41	25	8	24	1.83
20340324--20340408	18	4.7	18	92	0	134	41	25	8	24	1.83
20347403--20347433	2	15.5	2	100	0	62	51	0	0	48	1.00
20378975--20379960	492	2.0	492	100	0	1972	33	19	20	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20384236--20384260	6	4.2	6	100	0	50	52	0	0	48	1.00
20397262--20397594	166	2.0	167	99	0	659	46	7	16	30	1.73
20397833--20397882	23	2.2	23	92	0	82	30	28	12	30	1.92
20402568--20402593	2	13.0	2	100	0	52	50	0	0	50	1.00
20410863--20410918	29	2.0	28	86	10	78	50	16	3	30	1.62
20417110--20417190	24	3.4	22	74	19	65	37	20	23	18	1.94
20417219--20417273	26	2.1	26	89	0	83	38	23	20	18	1.93
20417901--20417940	20	2.0	20	85	0	53	37	15	2	45	1.59
20419015--20419066	24	2.2	24	82	0	59	50	3	1	44	1.31
20428449--20428529	24	3.4	22	74	19	65	37	20	23	18	1.94
20428558--20428612	26	2.1	26	89	0	83	38	23	20	18	1.93
20429240--20429279	20	2.0	20	85	0	53	37	15	2	45	1.59
20430354--20430405	24	2.2	24	82	0	59	50	3	1	44	1.31
20451867--20451960	37	2.6	36	83	8	118	34	22	1	42	1.61
20451946--20451989	23	1.9	22	82	17	54	38	22	0	38	1.55
20452242--20452275	17	1.9	18	88	5	52	35	23	0	41	1.55
20452311--20452344	4	8.0	4	87	12	50	0	26	0	73	0.83
20452306--20452347	9	4.7	9	85	8	59	0	26	0	73	0.83
20452307--20452344	13	2.9	13	92	0	67	0	26	0	73	0.83
20456872--20456900	14	2.1	14	100	0	58	13	0	6	79	0.93
20460437--20460469	6	5.5	6	100	0	66	15	0	0	84	0.61
20460577--20460609	17	1.9	17	93	0	57	57	0	3	39	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20461858--20461890	17	1.9	17	93	0	57	57	0	3	39	1.14
20466543--20466784	105	2.3	105	77	5	265	30	20	17	31	1.96
20467163--20467523	104	3.5	103	80	2	359	29	20	16	33	1.94
20471159--20471217	11	5.4	11	78	6	66	23	28	1	45	1.63
20471167--20471217	22	2.3	22	96	0	93	23	29	1	45	1.64
20471206--20471260	29	1.9	28	82	10	67	30	23	1	43	1.64
20471190--20471267	40	2.0	40	82	5	95	26	25	1	46	1.61
20473239--20473295	24	2.4	24	82	5	62	28	31	17	22	1.97
20476278--20476306	7	4.3	7	91	8	51	44	41	0	13	1.44
20487358--20487546	93	2.1	91	83	4	236	18	15	11	55	1.69

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75