genome.fa.s6.2.7.7.80.10.50.1000.17.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:  35726063

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   104   105   106   107   108   109   

This is table  17  of  109  ( 13028 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)
5726105--5727004	75	11.8	75	82	5	1015	34	20	17	27	1.95
5726108--5727004	148	5.9	145	81	8	895	34	20	17	27	1.95
5726106--5726984	223	3.8	227	84	5	1037	34	21	17	27	1.95
5727900--5727932	16	2.0	17	94	5	59	6	0	9	84	0.76
5730965--5731036	36	2.0	36	100	0	144	25	27	25	22	2.00
5732137--5732196	29	2.1	29	100	0	120	16	8	6	68	1.37
5737696--5737728	16	2.0	17	88	5	50	45	9	0	45	1.35
5738359--5738395	9	4.1	9	89	0	56	48	13	8	29	1.71
5738431--5738473	21	2.0	21	82	8	52	23	34	0	41	1.55
5739783--5739823	20	2.0	20	100	0	82	46	4	14	34	1.66
5742394--5742488	31	3.1	31	93	0	154	34	31	14	18	1.92
5743877--5743917	5	8.2	5	100	0	82	39	0	21	39	1.54
5743995--5744046	24	2.2	24	89	0	77	38	1	9	50	1.46
5744002--5744061	24	2.5	23	84	10	68	38	1	10	50	1.46
5748340--5748391	24	2.2	24	89	0	77	36	3	9	50	1.54
5748723--5748769	18	2.6	18	77	12	51	48	4	4	42	1.42
5750867--5750914	18	2.7	18	81	9	62	37	16	4	41	1.68
5752659--5752712	26	2.1	26	100	0	108	33	18	11	37	1.86
5755123--5755169	24	1.9	25	86	4	69	51	12	6	29	1.65
5755428--5755456	13	2.1	14	93	6	51	24	20	6	48	1.74
5762742--5762807	27	2.4	27	89	0	96	25	28	28	16	1.97
5762892--5762927	11	3.4	11	92	7	65	77	0	22	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5762954--5762992	19	2.0	21	85	10	55	25	0	7	66	1.18
5763058--5763083	3	8.7	3	100	0	52	0	0	30	69	0.89
5766116--5766277	18	8.6	18	71	18	84	0	29	0	70	0.87
5766094--5766243	39	4.1	37	82	11	132	0	30	0	70	0.88
5766148--5766282	4	33.0	4	73	20	102	0	28	0	71	0.87
5766121--5766269	44	3.4	43	80	13	155	0	28	0	71	0.87
5766113--5766281	79	2.2	76	88	10	251	0	28	0	71	0.87
5766113--5766281	40	4.5	40	78	18	177	0	28	0	71	0.87
5766427--5766496	28	2.5	29	86	6	101	47	1	10	41	1.46
5774091--5774125	17	2.0	18	88	5	54	54	0	20	25	1.45
5775547--5775610	33	1.9	33	100	0	128	39	10	34	15	1.83
5783988--5784012	8	3.1	8	100	0	50	24	0	0	76	0.80
5784215--5784250	11	3.0	13	84	15	51	30	0	0	69	0.89
5784215--5784249	12	2.8	12	91	4	52	28	0	0	71	0.86
5788497--5788536	3	13.3	3	100	0	80	32	0	0	67	0.91
5789547--5789586	3	13.3	3	100	0	80	32	0	0	67	0.91
5791290--5791333	20	2.2	20	84	8	54	31	0	2	65	1.05
5794885--5794928	17	2.6	17	83	13	56	20	0	4	75	0.98
5795379--5795426	2	24.0	2	95	0	87	0	47	0	52	1.00
5807796--5807960	75	2.2	75	93	0	285	23	24	14	38	1.92
5812329--5812360	16	2.0	16	100	0	64	56	0	12	31	1.37
5812675--5812715	16	2.6	16	88	0	64	46	7	2	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5813547--5813809	43	6.2	43	87	1	359	25	31	19	24	1.98
5813527--5813809	85	3.3	85	87	3	352	25	29	19	25	1.98
5813547--5813809	128	2.1	128	86	2	359	25	31	19	24	1.98
5821327--5821524	14	13.9	14	72	12	134	47	32	1	18	1.56
5821326--5821524	7	27.9	7	69	11	75	47	33	1	18	1.56
5821417--5821458	22	2.0	21	90	4	66	50	33	0	16	1.46
5821708--5821987	41	6.9	40	79	6	251	30	30	20	18	1.97
5821748--5821992	41	6.0	41	82	2	287	28	33	20	17	1.95
5821730--5821987	122	2.1	122	82	1	302	31	31	19	17	1.95
5822800--5822824	13	1.9	13	100	0	50	40	16	20	24	1.91
5824109--5824153	6	7.5	6	85	9	65	17	0	0	82	0.68
5824595--5824927	43	7.8	40	76	14	258	21	17	30	30	1.96
5824595--5824885	130	2.2	129	78	11	308	22	16	30	30	1.96
5824595--5824948	86	4.1	86	90	1	485	24	17	29	28	1.97
5824722--5825009	86	3.3	87	89	1	260	23	20	29	27	1.99
5825191--5825233	22	2.0	22	90	0	68	44	27	18	9	1.80
5833858--5833892	18	2.0	17	88	5	52	45	0	0	54	0.99
5834057--5834147	45	2.0	45	85	2	121	37	28	6	27	1.82
5834128--5834180	16	3.2	16	94	5	97	37	37	0	24	1.56
5845438--5845729	50	5.9	50	84	6	335	28	21	28	21	1.99
5849286--5849323	18	2.2	17	86	9	51	21	7	2	68	1.28
5854265--5854300	6	6.0	6	96	0	63	66	2	0	30	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5860787--5860848	33	1.9	33	83	6	83	30	4	3	61	1.33
5864144--5864168	12	2.1	12	100	0	50	48	0	0	52	1.00
5864239--5864293	12	4.3	13	75	17	53	50	3	3	41	1.37
5865018--5865051	16	2.2	16	89	5	52	50	2	0	47	1.16
5865822--5865859	12	3.2	12	88	0	58	10	5	5	78	1.06
5874134--5874176	18	2.4	18	88	0	68	9	39	4	46	1.57
5883028--5883061	18	1.9	17	94	5	59	38	0	14	47	1.45
5886365--5886620	126	2.0	126	90	3	399	37	11	9	41	1.75
5891301--5891360	31	2.0	31	83	3	77	38	11	10	40	1.75
5895808--5895850	20	2.2	20	87	4	61	34	0	0	65	0.93
5898361--5898403	18	2.4	18	88	0	59	41	44	2	11	1.53
5899002--5899043	12	3.7	12	79	20	54	21	2	0	76	0.90
5900019--5900066	20	2.4	19	78	18	53	37	14	2	45	1.57
5902198--5902244	19	2.5	19	86	6	60	25	19	10	44	1.82
5905070--5905099	12	2.4	13	94	5	53	86	0	13	0	0.57
5906464--5906651	100	1.9	100	82	6	238	31	24	20	22	1.98
5906741--5907149	50	8.2	50	72	5	227	32	20	20	26	1.98
5906793--5907148	100	3.5	100	84	3	369	31	21	20	26	1.98
5906939--5907121	51	3.7	49	73	7	136	31	21	21	25	1.98
5907141--5907536	44	9.1	44	67	14	146	29	21	22	26	1.99
5907158--5907548	217	1.8	217	90	1	631	29	21	22	26	1.99
5908361--5908399	10	3.9	10	89	0	51	25	0	5	69	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5908356--5908394	20	2.0	20	89	0	60	25	0	2	71	0.98
5909370--5909425	20	2.8	20	78	13	69	37	14	1	46	1.55
5910169--5910193	8	3.1	8	100	0	50	48	24	16	12	1.79
5924427--5924495	3	23.7	3	80	16	83	33	2	0	63	1.09
5926605--5926903	57	5.2	57	100	0	598	37	18	28	16	1.92
5927026--5927230	56	3.8	55	73	15	165	40	17	22	19	1.92
5927026--5927171	56	2.6	56	86	4	195	39	18	23	18	1.92
5926945--5927267	161	2.0	167	84	7	437	36	17	23	22	1.94
5927629--5927666	20	1.9	20	94	0	67	60	5	2	31	1.33
5927970--5928046	37	2.1	37	100	0	154	20	25	20	32	1.97
5929672--5929828	43	3.7	43	88	3	219	26	17	24	31	1.97
5931646--5932035	52	7.3	52	92	3	573	23	22	0	52	1.52
5935054--5935275	114	2.0	114	90	2	358	31	20	14	33	1.92
5935054--5935283	113	2.1	110	88	5	338	30	19	13	35	1.91
5935324--5935474	61	2.5	59	84	9	184	18	22	19	39	1.93
5935378--5935497	55	2.2	55	80	3	134	16	23	16	43	1.87
5937087--5937133	21	2.2	21	85	7	60	51	6	8	34	1.58
5939928--5939966	19	2.1	19	85	4	53	64	5	5	25	1.35
5941975--5942034	29	2.1	29	100	0	120	25	18	40	16	1.91
5942606--5942636	12	2.6	12	94	0	53	29	6	3	61	1.37
5944980--5945042	25	2.5	25	100	0	126	30	33	0	36	1.58
5945596--5945622	12	2.2	12	100	0	54	44	0	7	48	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5946097--5946124	14	2.0	14	100	0	56	28	21	14	35	1.92
5952529--5952585	29	1.9	30	85	3	80	28	12	17	42	1.85
5958601--5958653	19	2.7	19	85	8	63	60	5	1	32	1.31
5959134--5959218	42	2.0	42	97	0	161	37	10	11	40	1.77
5961425--5961500	40	1.9	40	86	5	109	22	28	26	22	1.99
5974557--5974600	23	1.9	23	86	9	63	68	2	20	9	1.28
5981359--5981390	15	2.1	15	100	0	64	31	18	31	18	1.95
5993510--5993544	6	5.8	6	100	0	70	17	68	0	14	1.21
5994701--5994745	23	2.0	23	86	0	63	28	13	17	40	1.88
5996497--5996539	3	14.3	3	81	18	54	32	2	0	65	1.06

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   104   105   106   107   108   109