genome.fa.s39.2.7.7.80.10.50.1000.11.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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  11  of  27  ( 3195 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)
1757365--1763112	477	12.1	476	86	3	7495	31	18	14	35	1.91
1761199--1761877	160	4.3	157	67	11	394	31	18	13	36	1.90
1762706--1763882	405	2.9	396	89	3	1700	31	18	13	36	1.90
1764157--1764856	158	4.4	156	69	12	447	30	18	13	37	1.89
1763512--1768012	476	9.5	474	85	4	5438	31	18	13	36	1.90
1766420--1767759	159	8.4	158	69	14	534	31	19	13	35	1.91
1767613--1768414	404	2.0	405	88	4	1217	30	18	13	37	1.89
1768193--1768649	236	1.9	235	88	2	693	27	18	14	39	1.89
1768721--1769405	318	2.2	317	86	2	930	29	18	14	38	1.90
1768721--1769506	317	2.5	317	80	6	754	29	18	13	37	1.90
1769042--1770141	475	2.3	476	85	2	1474	29	18	15	37	1.91
1775118--1775164	18	2.6	18	83	6	51	10	46	0	42	1.38
1775149--1775209	9	7.1	9	78	10	65	13	40	0	45	1.43
1775121--1775239	42	2.8	42	88	2	168	12	42	0	44	1.42
1777167--1787533	477	21.9	476	81	4	9080	30	18	14	36	1.91
1782111--1788633	159	41.2	156	65	13	835	30	18	14	36	1.91
1782585--1783268	318	2.2	316	85	5	921	29	17	14	37	1.90
1787195--1787858	319	2.1	315	86	2	900	29	17	15	37	1.91
1787339--1787993	319	2.1	318	78	4	658	30	18	14	36	1.91
1787492--1789345	477	3.9	477	85	1	2201	30	18	14	36	1.91
1787492--1796554	478	18.9	476	81	5	9215	30	19	14	36	1.91
1787492--1796543	955	9.5	954	81	5	9673	30	19	14	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1791785--1796289	159	28.3	156	65	11	552	30	19	14	35	1.92
1796377--1796732	182	2.0	182	82	2	437	28	22	15	33	1.94
1795900--1797213	659	2.0	659	89	0	2020	29	20	14	35	1.93
1796559--1797612	478	2.2	476	87	1	1475	29	20	14	35	1.92
1797029--1798220	627	1.9	627	90	0	1857	30	20	15	34	1.93
1797654--1801604	477	8.3	476	84	2	4916	29	19	14	36	1.92
1801411--1801808	205	1.9	205	87	1	575	28	20	14	36	1.92
1800937--1802284	680	2.0	679	85	1	1817	29	19	14	36	1.91
1801616--1802949	475	2.8	475	88	2	1937	31	19	13	36	1.90
1806728--1806752	13	1.9	13	100	0	50	32	16	16	36	1.90
1806707--1806769	33	1.9	32	87	3	90	33	20	15	30	1.94
1806822--1806885	19	3.7	19	74	23	77	39	15	14	31	1.87
1806841--1806920	13	6.2	13	71	28	64	35	15	16	33	1.90
1806821--1806920	32	3.1	32	94	4	166	37	15	15	33	1.88
1807294--1807320	13	2.1	13	100	0	54	29	14	14	40	1.86
1807372--1807437	20	3.7	20	73	26	83	33	15	18	33	1.92
1807387--1807450	13	5.4	13	75	21	68	34	15	15	34	1.90
1807371--1807470	33	3.0	33	94	5	168	35	14	18	33	1.90
1809917--1809963	24	1.9	25	91	4	78	53	19	21	6	1.67
1812146--1812369	79	2.8	79	86	6	294	29	15	28	26	1.96
1812376--1812562	51	3.6	51	84	3	250	31	11	26	29	1.92
1813782--1813810	11	2.6	11	100	0	58	48	17	10	24	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814929--1814954	13	2.0	13	100	0	52	38	15	15	30	1.88
1814941--1814983	21	2.0	21	100	0	86	30	18	9	41	1.82
1814999--1815050	13	3.5	13	73	26	50	36	17	13	32	1.89
1815007--1815069	19	3.7	17	76	24	62	38	17	12	31	1.87
1814999--1815071	32	2.3	32	95	0	128	36	17	12	32	1.87
1815883--1816771	55	15.4	55	82	11	902	25	19	27	27	1.99
1815955--1816098	28	5.2	29	63	24	94	22	19	29	28	1.98
1816047--1816770	61	12.4	60	83	9	826	26	19	26	26	1.99
1815883--1816771	116	7.7	115	85	8	1018	25	19	27	27	1.99
1816128--1816215	28	3.2	28	66	15	83	28	18	25	28	1.98
1816627--1816709	26	3.1	26	67	21	71	22	20	28	27	1.99
1816342--1816988	228	2.9	217	82	9	649	25	20	28	26	1.99
1816685--1816866	100	1.8	100	82	4	233	23	20	31	24	1.98
1816790--1818015	61	20.8	59	81	9	1163	25	19	28	25	1.99
1816619--1816927	161	2.0	155	84	10	412	24	19	31	24	1.98
1816790--1818016	176	6.9	177	81	10	1281	25	19	28	25	1.99
1818063--1818326	60	4.3	60	86	1	339	28	17	28	25	1.98
1818057--1818326	122	2.2	123	86	4	366	28	18	27	25	1.98
1821632--1821657	13	2.0	13	100	0	52	30	23	15	30	1.95
1821747--1821802	21	2.6	22	94	5	105	37	10	25	26	1.88
1821790--1821820	10	3.1	10	90	0	53	41	6	29	22	1.78
1821844--1821961	53	2.2	54	95	1	211	27	18	17	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821931--1822001	20	3.5	20	77	11	74	29	12	15	42	1.84
1822041--1822081	21	2.0	21	85	9	57	39	9	12	39	1.76
1825905--1826138	78	3.0	79	81	8	289	29	13	28	28	1.94
1826090--1826162	27	2.6	28	81	14	89	19	20	35	24	1.95
1826145--1826275	50	2.6	52	83	6	160	30	14	26	28	1.95
1828634--1828658	13	1.9	13	100	0	50	32	20	16	32	1.94
1828647--1828749	21	4.9	21	97	0	197	27	18	9	44	1.81
1828633--1828749	42	3.0	36	88	11	112	28	18	10	42	1.83
1828770--1828855	19	4.9	19	79	17	105	37	16	11	34	1.85
1828793--1828857	32	2.0	32	93	0	112	35	15	12	36	1.85
1832254--1832290	13	2.8	13	91	0	65	32	18	13	35	1.90
1834168--1834210	23	2.0	23	86	9	63	30	0	27	41	1.56
1834860--1834906	13	4.2	12	75	25	57	36	14	14	34	1.88
1834841--1834908	33	2.1	32	89	8	102	33	14	16	35	1.89
1837115--1837177	12	5.8	12	67	27	50	12	47	0	39	1.42
1837113--1837220	42	2.6	42	90	0	162	13	42	0	43	1.44
1837137--1837220	24	3.8	24	72	18	90	15	39	0	45	1.46
1839066--1839132	33	2.0	33	88	0	98	34	11	13	40	1.81
1839086--1839110	13	1.9	13	100	0	50	36	16	16	32	1.90
1839173--1839197	13	1.9	13	100	0	50	32	16	16	36	1.90
1839206--1839335	52	2.5	52	91	3	201	32	20	16	31	1.94
1844232--1844272	21	2.0	21	85	9	57	17	19	12	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1847763--1848443	166	4.1	164	78	9	560	31	12	8	47	1.71
1847912--1848493	164	3.5	165	80	9	562	31	11	9	47	1.70
1850222--1850928	148	4.8	148	71	14	500	23	15	21	39	1.92
1855357--1855381	13	1.9	13	100	0	50	36	16	16	32	1.90
1855334--1855401	33	2.1	33	88	2	102	32	14	17	35	1.91
1855434--1855486	20	2.7	20	90	0	79	30	15	13	41	1.85
1857472--1857523	20	2.4	21	84	12	70	3	26	50	19	1.65
1857787--1857827	22	2.0	21	86	13	59	41	4	21	31	1.74
1857959--1857997	13	3.0	13	88	0	60	35	15	20	28	1.93
1861882--1861907	13	2.0	13	100	0	52	30	15	15	38	1.88
1861946--1862021	21	3.7	21	80	3	100	28	17	11	42	1.84
1861967--1862039	20	3.6	20	81	3	101	31	19	13	35	1.91
1861946--1862039	41	2.3	41	98	0	179	29	18	12	39	1.88
1864482--1864558	20	3.6	20	74	19	66	44	15	14	25	1.84
1866573--1866603	15	2.1	15	93	0	53	12	22	16	48	1.80
1870666--1870691	13	2.0	13	100	0	52	30	15	15	38	1.88
1870730--1870805	21	3.7	21	80	3	100	28	17	11	42	1.84
1870751--1870823	20	3.6	20	81	3	101	31	19	13	35	1.91
1870730--1870823	41	2.3	41	98	0	179	29	18	12	39	1.88
1872517--1872547	9	3.4	9	95	0	53	25	35	0	38	1.56
1874200--1874252	20	2.7	20	90	0	79	30	15	13	41	1.85
1875127--1875178	23	2.2	25	93	6	90	0	17	0	82	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1875127--1875186	13	5.0	13	78	15	67	1	20	0	78	0.84
1886182--1886233	20	2.5	21	93	3	88	26	11	15	46	1.80
1888433--1889170	166	4.5	166	80	7	738	28	10	8	52	1.65
1888444--1889161	330	2.2	329	81	7	819	29	10	8	51	1.65
1888609--1889227	330	1.9	329	79	6	716	29	10	8	52	1.64
1889520--1889566	13	3.7	13	77	2	51	78	2	19	0	0.85
1893123--1893177	20	2.8	20	82	0	74	41	14	12	30	1.83
1894010--1894505	28	17.0	28	83	7	546	22	17	30	28	1.97
1894006--1894510	115	4.3	117	85	5	600	23	17	30	28	1.97
1894006--1894501	87	5.7	86	84	7	565	23	17	30	28	1.97

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