genome.fa.s1.2.7.7.80.10.50.1000.80.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: chr1
Parameters: 2 7 7 80 10 50 1000
Length:  37323695

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   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   

This is table  80  of  93  ( 11113 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)
30777524--30777589	27	2.5	26	85	9	89	37	0	0	62	0.96
30777527--30777600	30	2.6	29	85	6	98	39	0	0	60	0.97
30793339--30793373	12	2.9	12	91	0	52	22	0	8	68	1.16
30795583--30795617	2	17.5	2	100	0	70	51	0	48	0	1.00
30797733--30797820	44	2.0	44	100	0	176	22	31	4	40	1.74
30798796--30798828	17	1.9	17	88	11	50	51	9	0	39	1.34
30801352--30801391	14	2.8	15	81	14	57	5	37	0	57	1.21
30801855--30801897	15	2.8	15	80	16	52	30	0	0	69	0.88
30801851--30801883	12	2.9	12	91	8	52	24	0	0	75	0.80
30801854--30801897	20	2.3	19	88	4	61	29	0	0	70	0.88
30803255--30803305	23	2.2	23	82	0	57	27	7	37	27	1.84
30803273--30803328	23	2.4	23	90	0	85	26	8	35	28	1.87
30803359--30803435	23	3.3	23	87	0	100	25	15	33	24	1.95
30803237--30803810	104	5.5	103	77	5	458	26	13	35	24	1.93
30803479--30803541	23	2.7	23	77	0	63	30	14	34	20	1.92
30803242--30803804	208	2.7	207	84	1	664	26	13	35	24	1.93
30803767--30803834	23	3.0	24	76	12	79	23	19	33	23	1.97
30804364--30804665	168	1.8	167	87	6	450	11	11	30	46	1.75
30804307--30804690	110	3.5	109	82	4	448	12	11	29	46	1.77
30804307--30804682	55	6.8	55	78	7	384	12	11	29	46	1.77
30807073--30807172	41	2.4	41	100	0	200	40	27	2	31	1.68
30808190--30808440	81	3.1	81	88	0	367	19	18	33	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30809861--30810107	86	2.9	86	85	3	311	25	31	20	22	1.98
30810842--30810973	31	4.3	31	89	0	201	40	19	16	23	1.91
30811226--30811345	63	1.9	63	84	3	161	33	10	30	25	1.90
30821573--30821639	24	2.8	25	80	11	77	52	1	0	46	1.09
30842252--30842440	97	2.0	96	93	1	324	39	17	20	22	1.92
30846931--30847032	38	2.7	38	85	0	150	27	10	23	38	1.88
30847234--30847268	14	2.5	14	86	13	54	17	17	8	57	1.64
30852054--30852091	10	3.9	10	83	16	53	68	0	0	31	0.90
30852057--30852101	18	2.6	17	86	6	63	71	0	2	26	0.98
30852060--30852101	17	2.4	17	92	4	66	73	0	2	23	0.94
30858364--30858392	2	14.5	2	100	0	58	0	0	48	51	1.00
30859465--30859498	2	17.5	2	93	6	61	50	0	50	0	1.00
30866126--30866182	27	2.1	27	86	0	78	36	21	26	15	1.93
30866056--30866174	54	2.2	53	77	4	123	34	20	26	19	1.96
30866465--30866504	20	2.0	20	95	0	71	37	25	17	20	1.94
30867696--30867788	27	3.5	26	88	5	123	26	17	33	22	1.96
30867711--30867824	27	4.2	27	79	9	108	28	20	34	17	1.95
30867695--30867815	54	2.2	54	79	7	129	27	19	33	20	1.96
30869250--30869314	31	2.1	31	97	0	121	41	3	10	44	1.55
30869994--30870049	28	2.1	26	83	6	67	51	5	0	42	1.24
30869985--30870136	83	1.9	81	86	5	216	45	9	1	44	1.44
30870190--30870272	42	2.0	43	80	7	98	44	3	2	49	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30877218--30877268	23	2.2	23	86	10	68	7	29	1	58	1.37
30887420--30887805	166	2.3	168	88	1	578	38	12	16	32	1.86
30893082--30893106	10	2.5	10	100	0	50	36	0	0	64	0.94
30893500--30893575	15	5.1	15	73	7	57	46	0	5	48	1.24
30893861--30893978	53	2.2	53	86	7	159	39	13	12	33	1.83
30905022--30905060	18	2.1	19	85	4	53	30	17	2	48	1.61
30912014--30912094	42	2.0	42	87	2	119	13	24	16	45	1.83
30921111--30921157	22	2.1	23	84	11	62	48	12	4	34	1.61
30928553--30928607	28	2.0	28	88	0	83	47	5	25	21	1.72
30929462--30929492	2	15.5	2	100	0	62	48	0	0	51	1.00
30930011--30930084	26	2.9	26	88	6	107	44	12	4	39	1.61
30931560--30931604	23	2.0	23	86	0	63	17	0	28	53	1.44
30931960--30932051	48	2.0	45	85	10	123	66	7	13	13	1.44
30932026--30932077	22	2.4	22	80	6	61	78	0	13	7	0.94
30932040--30932088	23	2.2	23	92	3	82	71	2	10	16	1.22
30943491--30943550	3	18.0	3	77	19	57	28	3	1	66	1.17
30948296--30948341	18	2.6	18	80	19	53	71	4	0	23	1.03
30948578--30948618	20	2.0	20	85	0	55	85	9	4	0	0.73
30948831--30948895	29	2.2	29	86	0	85	38	12	40	9	1.75
30948846--30948914	29	2.4	29	82	0	75	39	11	42	7	1.69
30949455--30949484	13	2.2	14	94	5	53	80	0	0	20	0.72
30965908--30965979	26	2.9	25	82	10	78	29	12	18	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30965998--30966086	45	2.0	45	86	4	126	29	17	17	34	1.94
30966022--30966228	69	3.0	69	82	1	218	29	18	14	37	1.91
30966250--30966298	24	2.1	24	84	3	64	18	16	22	42	1.88
30966273--30966388	45	2.6	45	85	0	151	27	15	17	39	1.90
30966366--30966416	24	2.1	24	88	0	75	23	13	21	41	1.89
30966103--30966454	114	3.1	113	80	6	406	29	17	16	37	1.91
30967071--30967103	14	2.3	15	94	5	59	39	12	6	42	1.67
30967265--30967303	15	2.5	15	87	4	51	46	10	2	41	1.51
30967358--30967515	73	2.1	74	83	3	194	41	5	8	44	1.58
30967645--30967702	16	3.6	15	77	13	53	51	1	5	41	1.34
30967661--30967732	26	2.9	23	74	22	58	48	1	6	43	1.38
30973954--30973992	17	2.4	16	84	12	53	58	2	0	38	1.12
30975069--30975117	3	17.7	3	87	12	70	28	0	0	71	0.86
30975050--30975106	26	2.2	26	81	6	62	28	3	1	66	1.18
30975050--30975112	29	2.2	29	80	5	74	28	3	1	66	1.16
30975196--30975238	16	2.8	16	85	3	52	30	0	20	48	1.50
30975404--30975476	1	73.0	1	100	0	146	100	0	0	0	0.00
30976134--30976177	2	22.0	2	100	0	88	0	50	0	50	1.00
30978879--30978944	34	1.9	34	87	0	96	25	10	36	27	1.89
30979011--30979112	38	2.7	37	89	4	159	33	6	38	21	1.80
30979719--30979760	2	21.5	2	90	4	68	54	0	0	45	0.99
30994568--30994633	31	2.2	31	83	8	82	25	10	12	51	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30995105--30995237	51	2.6	50	70	9	133	15	15	5	63	1.48
30995016--30995513	213	2.4	208	85	9	644	23	14	9	52	1.71
30995348--30995382	17	2.1	17	88	0	52	5	22	0	71	1.07
30995329--30995450	63	2.0	60	88	7	183	20	18	4	56	1.59
31010873--31010931	24	2.5	24	91	5	93	27	6	13	52	1.65
31010876--31010939	24	2.7	24	85	4	58	28	7	14	50	1.70
31013130--31013155	13	2.0	13	100	0	52	30	7	23	38	1.83
31017555--31017587	13	2.5	13	100	0	66	21	9	12	57	1.62
31018639--31018677	20	2.0	20	85	10	53	53	2	5	38	1.37
31022181--31022608	215	2.0	217	91	3	702	28	19	21	31	1.97
31023071--31023096	4	6.5	4	100	0	52	53	0	0	46	1.00
31025134--31025165	16	2.1	15	94	5	55	12	0	15	71	1.14
31032050--31032164	55	2.1	55	88	1	169	39	19	17	24	1.92
31032915--31033013	30	3.4	29	79	5	110	39	10	16	34	1.82
31032913--31033083	88	1.9	88	82	2	209	37	13	17	31	1.89
31034201--31034602	60	6.7	60	77	4	351	36	10	15	37	1.82
31040876--31040957	35	2.3	35	91	2	128	63	3	9	23	1.41
31040876--31040973	35	2.8	35	86	4	101	59	6	10	24	1.53
31054384--31054432	2	25.0	2	95	4	91	51	0	0	48	1.00
31062538--31062601	25	2.6	25	80	14	78	28	15	14	42	1.86
31062673--31062701	14	2.1	14	93	6	51	79	0	6	13	0.93
31076642--31077144	60	8.4	60	78	7	398	34	13	17	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31076648--31077054	177	2.3	177	81	5	471	35	13	16	34	1.88
31076648--31077144	120	4.2	120	81	3	504	34	13	17	34	1.89
31076648--31077109	237	2.0	236	81	3	552	35	13	16	34	1.88
31078718--31078759	16	2.7	16	82	13	52	78	0	4	16	0.91
31081120--31081258	68	2.0	70	93	5	239	44	3	7	43	1.49
31081133--31081231	2	48.5	2	80	15	114	46	2	4	46	1.33
31082364--31082450	35	2.5	34	81	5	102	21	12	17	48	1.80
31083899--31083943	23	2.0	22	83	12	56	28	4	22	44	1.72
31085527--31085601	29	2.6	29	82	2	89	46	9	28	16	1.77
31085555--31085619	29	2.2	29	86	0	94	44	6	32	16	1.73

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   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93