genome.fa.s48.2.7.7.80.10.50.1000.12.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

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   

This is table  12  of  27  ( 3212 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)
1718348--1718404	27	2.1	27	90	0	87	40	5	19	35	1.74
1720424--1720454	2	15.5	2	100	0	62	48	0	0	51	1.00
1720817--1720984	91	1.8	93	83	10	229	45	1	5	46	1.38
1720974--1721019	23	2.0	24	82	4	58	56	2	0	41	1.11
1721300--1721342	22	2.0	22	86	9	61	25	2	0	72	0.97
1721827--1721866	14	2.8	15	78	21	50	40	5	7	47	1.54
1721966--1722034	30	2.2	32	82	10	90	53	0	0	46	1.00
1721980--1722041	30	2.1	30	87	6	90	53	0	0	46	1.00
1722076--1722100	13	1.9	13	100	0	50	68	0	0	32	0.90
1722009--1722285	111	2.5	109	81	9	285	53	3	2	40	1.30
1722104--1722308	109	1.9	107	82	7	254	53	2	3	40	1.33
1722257--1722328	22	3.4	22	72	14	62	61	4	2	31	1.29
1722563--1722834	122	2.2	122	87	4	377	43	3	0	51	1.24
1723168--1723262	38	2.5	38	77	3	93	46	1	8	44	1.40
1723521--1723699	90	2.0	91	84	7	240	42	6	15	35	1.74
1723641--1723756	57	2.0	57	86	3	162	42	7	14	35	1.75
1723551--1723841	150	2.0	147	84	2	384	41	7	15	34	1.76
1723698--1724036	93	3.7	91	84	4	430	41	7	17	33	1.78
1723980--1724093	57	2.0	57	91	3	185	39	10	16	33	1.83
1723794--1724273	240	2.0	235	84	4	620	40	8	17	32	1.81
1723524--1724371	336	2.6	334	89	3	1259	41	8	16	33	1.78
1724037--1724848	274	3.0	271	85	5	1071	41	8	17	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1724037--1724847	89	8.9	91	84	5	941	41	8	17	33	1.79
1724776--1724970	70	2.8	70	88	2	284	40	10	16	32	1.83
1725199--1725227	15	1.9	15	100	0	58	10	27	6	55	1.59
1728742--1728779	19	2.0	20	89	5	60	68	2	0	28	1.03
1728735--1728783	24	2.0	25	84	4	64	67	2	0	30	1.02
1728746--1728862	46	2.5	48	76	13	120	64	1	1	32	1.14
1728837--1728862	13	2.0	13	100	0	52	76	0	0	23	0.78
1730465--1730510	20	2.3	20	85	3	67	47	0	0	52	1.00
1730719--1730756	18	2.2	18	85	4	51	39	0	0	60	0.97
1731127--1731168	12	3.5	12	78	12	50	33	2	0	64	1.07
1731128--1731168	20	2.0	20	86	9	57	31	2	0	65	1.05
1731356--1731392	11	3.6	11	79	20	53	54	0	0	45	1.00
1731688--1731754	22	3.0	22	71	10	55	59	0	0	40	0.97
1733073--1733103	2	15.5	2	100	0	62	48	0	0	51	1.00
1734362--1734405	2	23.0	2	86	9	65	54	0	0	45	0.99
1734804--1734836	14	2.3	15	89	5	50	42	0	0	57	0.98
1735490--1735533	16	3.0	16	78	21	51	36	0	2	61	1.09
1740458--1740493	17	2.1	17	89	0	54	52	11	2	33	1.51
1744447--1744491	14	3.3	14	81	3	56	44	0	0	55	0.99
1745747--1745803	20	2.6	22	83	13	73	54	3	0	42	1.17
1747621--1747661	3	13.7	3	100	0	82	34	0	0	65	0.93
1748110--1748139	5	5.8	5	96	4	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748149--1748195	11	4.1	12	75	10	53	42	0	0	57	0.98
1748149--1748208	22	2.7	22	82	7	59	40	0	0	60	0.97
1748690--1748748	30	1.9	31	82	3	75	37	8	6	47	1.61
1750456--1750546	16	5.6	16	71	3	56	53	6	5	34	1.50
1752725--1752769	23	2.0	23	82	8	56	55	11	11	22	1.66
1753477--1753516	17	2.4	17	87	8	55	55	0	0	45	0.99
1754498--1754558	30	2.0	31	87	9	90	40	3	1	54	1.27
1754524--1754579	23	2.4	23	87	0	76	41	3	3	51	1.36
1754792--1754845	20	2.6	21	76	5	65	72	0	0	27	0.85
1754778--1754854	35	2.2	36	79	11	88	70	0	1	28	0.96
1754827--1754855	14	2.0	15	93	6	51	75	0	0	24	0.80
1758325--1758411	26	3.2	26	77	17	79	36	1	1	60	1.11
1762176--1762217	2	21.0	2	100	0	84	50	0	0	50	1.00
1763296--1763321	2	13.0	2	100	0	52	50	0	0	50	1.00
1768337--1768377	18	2.4	17	88	8	57	43	0	0	56	0.99
1768329--1768378	16	3.1	17	75	21	52	48	0	0	52	1.00
1768327--1768393	32	2.1	31	81	8	73	46	2	0	50	1.16
1769183--1769231	26	2.0	25	84	8	64	63	0	2	34	1.06
1769566--1769610	23	2.0	23	87	12	67	60	0	2	37	1.09
1769581--1769623	12	3.7	12	81	3	52	51	0	4	44	1.22
1769624--1769667	23	1.9	23	86	9	63	45	0	0	54	0.99
1770698--1770739	19	2.1	21	86	8	61	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1770698--1770737	20	2.0	21	85	5	55	57	0	0	42	0.98
1771648--1771730	36	2.3	35	75	16	82	49	0	2	48	1.14
1771646--1771721	38	2.0	39	85	12	104	51	0	2	46	1.15
1771718--1771762	13	3.6	13	80	16	51	62	0	0	37	0.96
1771851--1771898	20	2.5	19	87	9	71	47	0	0	52	1.00
1771952--1772003	24	2.1	26	85	7	72	53	3	0	42	1.19
1771963--1772009	12	4.0	12	77	2	51	55	4	0	40	1.19
1774288--1774347	5	11.8	5	72	10	50	63	0	0	36	0.95
1774278--1774357	26	3.0	26	80	5	90	63	0	0	36	0.94
1774636--1774667	3	10.3	3	93	6	55	0	34	0	65	0.93
1774666--1774704	3	13.0	3	100	0	78	33	0	0	66	0.92
1774802--1774849	24	2.0	24	84	8	62	52	2	0	45	1.12
1775206--1775308	52	1.9	53	82	7	129	52	1	0	45	1.12
1775615--1775664	23	2.1	23	89	10	75	40	0	2	58	1.10
1778648--1778723	33	2.3	32	80	8	82	57	0	0	42	0.98
1778678--1778742	15	3.9	18	69	26	54	55	0	0	44	0.99
1778683--1778778	14	6.9	14	72	13	65	60	0	0	39	0.97
1778649--1778793	57	2.6	58	79	16	155	59	0	0	40	0.97
1780058--1780128	37	1.9	37	85	5	99	46	1	2	49	1.25
1780679--1780721	15	3.1	14	83	9	52	37	0	0	62	0.95
1780667--1780736	28	2.7	25	78	18	72	41	0	1	57	1.08
1781023--1781071	17	2.9	17	84	3	55	32	2	0	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781023--1781073	22	2.4	21	90	3	75	31	1	0	66	1.03
1784786--1784812	6	4.5	6	100	0	54	0	66	0	33	0.92
1784788--1784831	23	1.9	23	81	9	54	2	65	0	31	1.05
1786085--1786144	19	3.0	20	73	11	61	36	0	5	58	1.20
1786383--1786538	78	2.0	78	86	5	217	24	15	11	48	1.78
1786870--1786918	22	2.2	22	82	7	55	42	0	0	57	0.99
1790137--1790167	2	15.5	2	100	0	62	0	51	0	48	1.00
1798003--1798028	11	2.4	11	100	0	52	53	0	26	19	1.45
1799101--1799145	14	3.3	14	84	6	56	68	0	0	31	0.89
1799108--1799158	13	3.9	13	85	12	61	66	0	0	33	0.92
1799108--1799149	14	3.1	14	89	6	59	64	0	0	35	0.94
1799097--1799214	18	6.8	17	71	19	66	65	0	0	33	0.99
1799164--1799223	26	2.4	25	86	5	84	61	0	1	36	1.06
1799088--1799213	9	14.1	9	69	18	52	64	0	1	34	1.03
1799188--1799216	11	2.7	11	94	5	51	65	0	0	34	0.93
1802666--1802734	19	3.5	19	78	21	72	57	1	0	40	1.07
1802904--1802940	15	2.5	16	83	16	53	10	10	0	78	0.97
1803299--1803336	19	2.1	18	90	5	58	36	0	0	63	0.95
1804953--1805003	23	2.1	23	82	10	57	56	1	0	41	1.10
1805596--1805643	18	2.6	19	80	6	53	45	2	0	52	1.12
1805610--1805663	19	3.1	17	75	17	56	38	1	0	59	1.08
1811069--1811122	26	2.1	25	86	3	72	37	1	0	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1811083--1811135	25	2.1	26	85	3	72	43	1	0	54	1.11
1811707--1811759	16	3.1	16	73	10	52	67	0	0	32	0.91
1811746--1811814	32	2.3	31	85	9	97	55	1	0	43	1.08
1811738--1811796	14	4.1	14	72	22	50	61	0	0	38	0.96
1815785--1815893	54	2.0	54	98	0	209	26	23	6	43	1.78
1823279--1823323	21	2.1	21	84	8	56	53	0	0	46	1.00
1823305--1823353	17	2.9	17	75	19	50	55	0	2	42	1.11
1825683--1825732	26	1.9	26	83	0	64	50	2	0	48	1.12
1826294--1826384	43	2.1	42	82	6	103	62	2	2	32	1.19
1826322--1826384	22	3.0	21	76	15	76	63	1	0	34	1.04

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