genome.fa.s5.2.7.7.80.10.50.1000.29.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   94   95   96   
          97   98   99   100   101   102   103   

This is table  29  of  103  ( 12320 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)
10953284--10953324	21	2.1	19	86	9	55	29	0	9	60	1.28
10956840--10956877	19	2.0	19	94	0	67	28	0	28	42	1.56
10967789--10967841	28	1.9	27	88	3	79	28	22	18	30	1.98
10967886--10967931	20	2.3	20	88	7	67	45	17	4	32	1.68
10968178--10968330	81	1.9	80	93	4	263	28	20	18	33	1.96
10970810--10971002	97	2.0	96	96	1	359	23	19	15	40	1.90
10972656--10972746	22	3.8	22	73	18	65	40	23	5	30	1.77
10972669--10972724	29	1.9	29	88	0	85	37	23	7	32	1.82
10972699--10972749	22	2.3	22	93	0	84	37	21	5	35	1.78
10977637--10977672	13	2.7	13	86	4	54	41	2	0	55	1.14
10977963--10978001	14	2.8	14	96	0	69	43	0	0	56	0.99
10986704--10986845	28	4.9	28	81	9	160	39	10	12	37	1.78
10986704--10986858	59	2.7	58	84	4	204	39	9	11	39	1.75
10992438--10992470	13	2.6	13	85	4	50	84	0	15	0	0.61
10996635--10996692	28	2.1	28	100	0	116	20	6	25	46	1.75
10996767--10996836	28	2.4	29	80	4	79	27	15	22	34	1.95
10996873--10997651	261	3.0	260	90	2	1192	27	18	19	34	1.95
11004062--11004153	39	2.4	39	88	0	139	34	23	18	22	1.96
11004528--11004646	43	2.8	43	88	2	159	20	37	20	21	1.94
11007667--11007734	28	2.4	28	95	0	118	33	20	22	23	1.97
11019530--11019588	26	2.3	26	79	5	66	1	28	3	66	1.18
11022194--11022626	217	2.0	216	99	0	848	26	12	18	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11024869--11024914	20	2.3	20	96	0	83	28	4	21	45	1.71
11028132--11028182	21	2.3	22	86	6	68	45	17	3	33	1.67
11030647--11030687	19	2.3	19	83	8	50	41	4	43	9	1.59
11031116--11031166	15	3.4	14	86	10	66	74	1	21	1	1.02
11031119--11031150	5	6.4	5	100	0	64	81	0	18	0	0.70
11040791--11040825	2	17.5	2	87	0	52	48	2	2	45	1.32
11040791--11040833	10	4.3	10	84	0	50	48	6	2	41	1.43
11040888--11040980	36	2.6	36	82	0	123	25	38	15	20	1.91
11046137--11046178	20	2.2	19	84	16	52	30	2	26	40	1.69
11046173--11046270	49	2.0	48	88	2	142	28	17	29	24	1.97
11046177--11046352	42	4.0	43	81	7	176	26	19	32	21	1.97
11046628--11046681	21	2.6	21	87	0	72	31	25	20	22	1.98
11048534--11048603	21	3.5	20	76	7	70	21	27	18	32	1.97
11048796--11048859	32	2.0	32	90	0	101	29	9	15	45	1.78
11048922--11049056	43	3.2	43	88	1	191	21	35	17	25	1.95
11052381--11052438	22	2.6	22	97	0	107	29	25	8	36	1.86
11060811--11060923	42	2.7	42	87	0	172	21	19	35	23	1.96
11060970--11061004	2	17.5	2	100	0	70	51	0	0	48	1.00
11070977--11071013	2	18.5	2	100	0	74	51	0	0	48	1.00
11077538--11077613	36	2.1	36	87	4	109	26	9	13	51	1.70
11077624--11077755	47	2.8	47	95	1	230	27	8	11	53	1.65
11077683--11077755	24	3.1	24	61	11	60	24	8	10	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11078451--11078483	17	1.9	17	100	0	66	36	6	18	39	1.75
11081764--11081808	19	2.4	19	96	3	83	33	15	6	44	1.73
11083580--11083639	30	2.1	29	81	6	68	31	8	21	38	1.83
11089017--11089058	22	2.0	20	90	9	66	40	0	11	47	1.40
11095199--11095236	20	1.9	20	89	10	60	15	23	13	47	1.81
11096731--11096807	2	35.5	2	77	12	64	45	6	3	42	1.48
11096731--11096829	50	2.0	49	100	0	189	42	10	6	40	1.63
11096936--11097028	40	2.3	40	96	0	168	21	20	38	19	1.93
11097270--11097328	22	2.7	22	72	0	55	32	20	18	28	1.96
11098681--11098773	38	2.4	38	83	0	105	23	35	10	30	1.89
11098708--11098796	38	2.4	37	92	3	153	25	33	5	34	1.80
11098712--11098836	38	3.0	42	85	13	147	26	33	5	34	1.80
11100539--11100580	2	20.5	2	85	4	57	47	2	4	45	1.36
11101703--11101728	13	2.0	13	100	0	52	0	15	0	84	0.62
11101691--11101734	11	3.9	11	81	3	52	0	22	0	77	0.77
11108522--11108576	25	2.2	25	81	9	67	29	29	14	27	1.95
11110391--11110423	12	2.6	13	85	9	50	0	33	0	66	0.92
11115690--11115765	34	2.2	35	83	4	91	56	17	0	26	1.41
11117265--11117298	2	17.0	2	100	0	68	50	0	0	50	1.00
11123672--11123961	136	2.1	136	92	0	490	33	21	10	34	1.87
11132584--11132636	28	1.9	27	88	3	79	28	18	18	33	1.95
11132688--11132725	20	1.9	20	94	0	67	44	18	5	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11135750--11135878	42	3.0	42	88	1	186	25	33	16	24	1.96
11141407--11141577	36	4.9	35	81	5	177	45	15	6	33	1.71
11148021--11148068	21	2.3	20	79	10	60	14	22	6	56	1.61
11148026--11148066	21	1.9	22	90	5	66	17	24	7	51	1.70
11148324--11148383	28	2.1	28	81	0	66	33	18	16	31	1.93
11162309--11162400	36	2.6	36	87	1	114	21	39	15	23	1.92
11162320--11162400	36	2.2	36	91	0	126	22	41	14	20	1.89
11162332--11162408	36	2.1	36	87	0	109	25	40	14	19	1.89
11165632--11165686	10	5.4	10	82	4	56	32	5	1	60	1.30
11169230--11169395	55	3.0	55	87	3	244	29	35	13	21	1.91
11178440--11178550	55	2.0	55	89	0	168	27	33	15	24	1.95
11178462--11178588	55	2.4	53	83	10	147	26	35	16	21	1.94
11183440--11183557	43	2.7	43	78	0	137	26	18	34	20	1.96
11183449--11183570	43	2.8	43	78	2	129	27	16	36	20	1.94
11188378--11188592	73	2.9	74	82	6	226	23	17	19	40	1.92
11197755--11197792	19	2.0	19	89	0	58	28	2	28	39	1.70
11202365--11202463	19	5.1	19	63	9	56	22	16	40	21	1.91
11202361--11202463	38	2.6	40	84	6	131	21	15	40	22	1.90
11207749--11207953	73	2.8	73	85	4	263	22	20	18	38	1.94
11208704--11208912	28	7.3	28	77	7	186	36	14	11	37	1.82
11211597--11211680	43	2.0	43	95	4	154	20	16	36	26	1.93
11211589--11211680	42	2.2	43	92	2	150	21	16	36	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11216058--11216145	35	2.5	35	92	0	140	23	11	35	29	1.90
11216404--11216572	62	2.7	62	80	0	185	23	24	20	31	1.98
11217810--11218031	55	4.0	56	89	4	317	27	38	13	19	1.90
11217827--11218062	55	4.5	51	84	9	228	27	38	14	19	1.91
11218560--11218600	2	20.5	2	100	0	82	48	0	0	51	1.00
11219495--11219649	63	2.5	63	86	4	206	23	32	20	24	1.98
11221456--11221505	14	3.5	14	83	2	55	74	2	22	2	1.03
11221456--11221504	19	2.6	19	80	6	55	73	2	22	2	1.04
11221946--11222011	33	2.0	33	100	0	132	45	0	3	51	1.16
11221946--11222001	19	3.2	19	66	23	59	50	0	3	46	1.19
11223186--11223227	22	1.9	22	95	0	75	35	14	7	42	1.73
11226384--11226443	25	2.4	25	77	0	66	28	31	18	21	1.97
11232578--11232650	37	2.0	37	88	0	110	31	10	35	21	1.88
11236194--11236253	30	2.1	30	84	6	79	40	21	6	31	1.79
11236588--11236626	19	2.0	20	85	14	55	28	7	5	58	1.47
11238432--11238472	21	2.1	19	86	9	55	29	0	9	60	1.28
11239313--11239372	30	2.1	29	81	6	68	31	8	21	38	1.83
11244452--11244553	54	1.9	53	93	2	170	43	12	10	32	1.78
11248051--11248155	43	2.4	43	87	3	140	26	19	34	20	1.96
11258039--11258083	21	2.2	20	84	4	54	64	4	0	31	1.13
11259297--11259339	21	2.0	21	90	0	68	27	13	30	27	1.95
11285502--11285673	69	2.5	69	75	1	166	33	27	14	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11289281--11289305	10	2.5	10	100	0	50	52	12	0	36	1.39
11290273--11290321	22	2.2	21	75	10	53	40	8	38	12	1.72
11292031--11292269	130	1.9	128	83	4	311	23	22	11	43	1.86
11294553--11294619	23	3.0	23	77	14	68	44	1	0	53	1.09
11299709--11299744	18	1.9	19	88	5	56	55	0	5	38	1.23
11302362--11302423	22	2.8	22	82	0	88	12	14	30	41	1.83
11303464--11303512	22	2.2	22	88	0	71	18	10	24	46	1.79
11303336--11303701	189	1.9	189	86	4	515	22	12	26	38	1.90
11303661--11303702	22	1.9	22	90	0	66	16	11	23	47	1.80
11307357--11307412	23	2.4	23	93	0	103	28	44	3	23	1.70

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   94   95   96   
          97   98   99   100   101   102   103