genome.fa.s129.2.7.7.80.10.50.1000.12.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: Scaffold129
Parameters: 2 7 7 80 10 50 1000
Length:  3652842

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  12  of  23  ( 2702 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)
1671749--1672116	156	2.4	150	85	7	479	29	18	26	25	1.98
1672012--1672087	39	1.9	40	83	2	100	35	13	28	22	1.92
1692931--1692994	32	2.0	33	90	3	103	28	14	15	42	1.86
1693046--1693101	20	2.8	20	89	5	78	28	17	16	37	1.91
1696384--1697144	163	4.6	165	80	6	746	30	10	6	51	1.63
1696384--1697208	164	5.0	166	79	8	473	30	10	7	51	1.64
1701519--1701562	20	2.3	19	88	4	61	79	0	15	4	0.89
1701534--1701567	17	2.0	17	88	0	50	73	0	17	8	1.08
1704119--1704150	12	2.4	14	90	10	50	3	15	0	81	0.82
1704647--1704699	20	2.7	20	80	11	56	62	7	0	30	1.23
1704791--1705552	163	4.7	163	81	6	743	51	6	11	30	1.63
1704791--1705552	328	2.3	326	80	3	798	51	6	11	30	1.63
1708837--1708892	20	2.8	19	89	5	76	37	16	17	28	1.91
1708944--1709007	32	2.0	33	90	3	103	42	15	14	28	1.86
1714210--1714247	13	2.9	13	96	0	67	34	18	15	31	1.92
1715845--1715888	23	2.0	21	82	8	52	15	9	15	59	1.61
1716670--1716725	20	2.8	19	89	5	76	37	16	17	28	1.91
1716778--1716840	33	1.9	32	87	9	92	42	15	14	26	1.86
1723082--1723106	7	3.6	7	100	0	50	84	0	0	16	0.63
1727753--1727815	28	2.2	29	83	8	85	12	12	9	65	1.48
1730664--1730689	13	2.0	13	100	0	52	30	15	15	38	1.88
1730644--1730707	32	2.0	33	90	3	103	28	14	18	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730644--1730714	19	4.0	18	72	25	62	26	12	21	39	1.89
1733233--1733257	13	1.9	13	100	0	50	36	16	16	32	1.90
1735294--1735365	12	6.5	11	80	16	71	40	0	45	13	1.44
1735314--1735386	9	8.4	9	74	8	62	45	0	43	10	1.39
1735284--1735402	42	2.8	41	91	2	175	44	0	44	10	1.39
1740433--1740576	74	2.0	74	91	1	236	31	8	18	42	1.79
1741449--1741926	154	3.1	152	82	4	536	31	10	9	48	1.68
1743785--1744276	156	3.1	153	82	4	565	26	15	18	39	1.91
1745918--1746034	58	2.0	58	89	0	180	27	21	20	30	1.98
1750909--1750972	28	2.3	28	83	8	85	60	9	17	12	1.57
1752447--1752741	143	2.1	143	79	9	307	31	12	9	46	1.74
1760177--1760293	37	2.9	41	80	13	145	44	2	45	7	1.46
1767531--1767597	12	5.9	11	75	18	57	38	2	50	7	1.46
1767560--1767606	24	2.0	24	86	0	67	42	2	44	10	1.51
1767551--1767630	42	1.9	42	86	0	115	41	3	47	7	1.50
1767521--1767602	33	2.5	33	93	0	137	43	2	46	7	1.44
1772884--1773615	34	22.4	34	75	16	581	21	34	12	32	1.91
1772884--1773590	131	5.4	126	80	12	619	21	33	12	32	1.91
1772884--1773563	97	7.0	95	76	16	566	21	33	12	32	1.91
1773433--1773486	27	2.0	27	92	0	90	22	40	14	22	1.90
1773461--1773595	35	3.9	34	83	9	155	19	30	11	38	1.87
1773600--1773669	33	2.1	35	94	5	126	25	37	17	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773669--1774692	49	21.5	48	82	7	1165	25	25	17	31	1.97
1774156--1774223	21	3.2	21	62	25	52	25	27	19	27	1.98
1774135--1774202	22	3.1	22	62	26	54	23	25	20	30	1.98
1773669--1774690	92	10.8	98	89	5	1103	25	25	17	31	1.97
1775638--1775662	13	1.9	13	100	0	50	36	16	16	32	1.90
1775745--1775872	52	2.5	52	98	1	249	33	17	17	31	1.93
1780754--1780787	17	2.0	17	88	0	50	47	17	5	29	1.71
1785361--1785386	13	2.0	13	100	0	52	38	15	15	30	1.88
1785343--1785406	32	2.0	33	90	3	103	39	18	14	28	1.90
1787000--1787034	12	2.9	12	100	0	70	34	0	34	31	1.58
1794772--1794812	15	2.7	15	80	0	55	80	2	14	2	0.92
1795558--1795624	12	5.9	11	75	18	57	38	1	49	10	1.46
1795578--1795657	42	1.9	42	89	0	124	42	2	45	10	1.51
1795548--1795629	33	2.5	33	89	0	119	43	1	45	9	1.44
1805140--1805189	18	2.8	19	87	6	61	6	46	2	46	1.39
1805158--1805255	9	11.6	9	70	8	55	9	46	1	42	1.42
1805140--1805264	42	3.0	42	89	1	178	8	46	1	44	1.42
1805179--1805254	12	6.9	11	75	15	52	9	50	1	39	1.43
1812409--1812450	21	2.0	21	95	0	75	21	14	0	64	1.29
1814032--1814097	35	1.9	34	93	3	114	30	25	13	30	1.94
1816071--1816197	48	2.7	48	78	9	127	29	12	19	38	1.89
1817173--1817222	25	2.0	25	100	0	100	36	20	16	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1822682--1822757	12	6.9	11	75	15	52	39	2	48	9	1.49
1822681--1822766	24	3.8	24	72	17	85	41	2	45	10	1.51
1822672--1822790	42	2.8	42	92	0	193	42	2	46	8	1.47
1830794--1830912	42	2.8	42	92	0	193	8	46	2	42	1.47
1830827--1830902	12	6.9	11	75	15	52	9	48	2	39	1.49
1830818--1830903	24	3.8	24	72	17	85	10	45	2	41	1.51
1830809--1830879	18	3.6	18	69	20	52	9	43	2	43	1.52
1831846--1832941	548	2.0	548	100	0	2192	37	21	16	24	1.93
1834544--1834583	15	2.7	15	80	0	53	82	2	12	2	0.87
1835330--1835405	12	6.9	11	75	15	52	39	2	48	9	1.49
1835329--1835414	24	3.8	24	72	17	85	41	2	45	10	1.51
1835320--1835438	42	2.8	42	90	0	184	43	2	45	8	1.47
1844566--1844654	29	3.1	29	69	22	80	56	5	24	13	1.59
1851195--1851298	41	2.5	41	84	4	118	24	20	14	41	1.89
1859347--1859465	42	2.8	42	92	0	193	8	46	2	42	1.47
1859380--1859455	12	6.9	11	75	15	52	9	48	2	39	1.49
1859371--1859456	24	3.8	24	72	17	85	10	45	2	41	1.51
1859362--1859432	18	3.6	18	69	20	52	9	43	2	43	1.52
1862029--1862067	19	2.1	19	100	0	78	17	10	20	51	1.74
1864227--1864262	18	1.9	19	88	5	56	16	8	25	50	1.73
1865179--1865222	21	2.1	21	86	0	61	45	18	2	34	1.62
1866800--1866916	62	1.9	61	87	1	171	44	13	12	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1866996--1867075	28	2.9	27	76	12	81	11	23	7	57	1.59
1870061--1870112	21	2.5	21	69	12	52	32	17	19	30	1.95
1873499--1873541	21	2.0	21	100	0	86	27	23	20	27	1.99
1886124--1886242	42	2.8	42	92	0	193	8	46	2	42	1.47
1886157--1886232	12	6.9	11	75	15	52	9	48	2	39	1.49
1886148--1886233	24	3.8	24	72	17	85	10	45	2	41	1.51
1886139--1886209	18	3.6	18	69	20	52	9	43	2	43	1.52
1888813--1888931	42	2.8	42	92	0	193	8	46	2	42	1.47
1888846--1888921	12	6.9	11	75	15	52	9	48	2	39	1.49
1888837--1888922	24	3.8	24	72	17	85	10	45	2	41	1.51
1888828--1888898	18	3.6	18	69	20	52	9	43	2	43	1.52
1892013--1892085	12	6.6	11	77	16	64	41	0	45	13	1.44
1892012--1892126	42	2.8	42	93	1	187	41	0	44	13	1.44
1899711--1899829	42	2.8	42	90	0	184	8	45	2	43	1.47
1899744--1899819	12	6.9	11	75	15	52	9	48	2	39	1.49
1899735--1899820	24	3.8	24	72	17	85	10	45	2	41	1.51
1899726--1899796	18	3.6	18	69	20	52	9	43	2	43	1.52
1904081--1904248	58	2.9	57	86	2	221	33	15	26	23	1.95
1904348--1904437	31	2.9	30	83	6	117	31	23	22	23	1.99
1904346--1904660	29	10.0	29	81	11	193	27	18	25	28	1.98
1904494--1904655	29	5.5	29	90	1	234	27	14	27	30	1.95
1904494--1904655	58	2.8	58	92	1	261	27	14	27	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1909838--1909870	15	2.2	15	89	10	50	69	6	12	12	1.35
1914537--1914644	21	5.3	18	66	30	58	10	48	1	39	1.48
1914540--1914658	42	2.8	42	93	0	202	9	46	1	42	1.46
1914573--1914648	12	6.9	11	75	15	52	9	48	2	39	1.49
1917782--1917829	21	2.2	20	82	17	53	4	10	4	81	0.97
1918597--1918642	23	2.0	23	91	0	74	19	32	21	26	1.97
1918600--1918650	23	2.2	23	82	0	57	25	35	17	21	1.95
1920606--1920824	103	2.1	102	84	0	276	30	22	12	35	1.91
1926281--1926399	42	2.8	42	92	0	193	8	46	2	42	1.47
1926314--1926389	12	6.9	11	75	15	52	9	48	2	39	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23