genome.fa.s40.2.7.7.80.10.50.1000.13.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: Scaffold40
Parameters: 2 7 7 80 10 50 1000
Length:  3440810

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   

This is table  13  of  24  ( 2833 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)
1755178--1755239	32	1.9	33	90	6	101	35	8	11	45	1.70
1755389--1755425	6	6.2	6	87	0	56	32	2	2	62	1.23
1757752--1757791	21	1.9	21	85	10	55	57	2	0	40	1.12
1758571--1758617	16	2.8	16	83	9	58	44	0	4	51	1.21
1759832--1759863	13	2.5	13	94	0	55	56	0	0	43	0.99
1760777--1760826	14	3.3	14	75	20	55	46	0	0	54	1.00
1760763--1760844	32	2.5	34	86	6	123	51	0	0	48	1.00
1760767--1760824	16	3.4	18	68	18	52	48	0	0	51	1.00
1760777--1760827	16	3.2	16	72	10	59	47	0	0	52	1.00
1760784--1760840	18	3.4	17	70	20	57	52	0	0	47	1.00
1761442--1761477	19	2.0	19	89	10	58	61	0	0	38	0.96
1762988--1763018	3	10.3	3	100	0	62	35	0	0	64	0.94
1763212--1763314	53	1.9	54	90	5	165	39	12	11	35	1.80
1764949--1764987	17	2.3	17	86	0	51	53	0	2	43	1.14
1765748--1765787	19	2.2	19	86	4	55	42	5	0	52	1.23
1767243--1767295	14	3.7	14	77	7	54	35	0	0	64	0.94
1768065--1768098	17	1.9	18	94	5	61	41	5	11	41	1.66
1768111--1768157	14	3.3	15	82	8	53	68	0	4	27	1.08
1772634--1772846	104	2.0	104	93	0	363	32	18	18	29	1.95
1775204--1775230	12	2.2	12	100	0	54	18	33	11	37	1.86
1776635--1776660	13	2.0	13	100	0	52	23	0	0	76	0.78
1776714--1776762	2	24.5	2	100	0	98	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777271--1777316	22	2.0	24	87	8	69	41	2	2	54	1.25
1777366--1777400	13	2.7	13	90	0	52	51	0	0	48	1.00
1782853--1782896	23	1.9	23	100	0	88	47	15	18	18	1.83
1795918--1795953	2	18.0	2	100	0	72	50	0	0	50	1.00
1797281--1797311	16	1.9	16	100	0	62	51	0	9	38	1.35
1798789--1798864	14	5.6	14	68	14	52	39	2	0	57	1.12
1799368--1799435	21	3.2	22	75	4	61	50	0	10	39	1.37
1800104--1800186	19	4.7	19	78	17	106	33	12	16	37	1.86
1800105--1800167	32	2.0	32	96	0	117	34	12	17	34	1.88
1802308--1802335	9	3.1	9	100	0	56	89	10	0	0	0.49
1803708--1803772	28	2.3	28	86	0	85	24	36	12	26	1.91
1803738--1803893	34	4.5	36	82	11	191	20	33	11	34	1.89
1803736--1803893	69	2.3	69	84	5	221	20	33	11	34	1.89
1803883--1804070	63	2.9	66	91	4	312	30	34	18	16	1.93
1803883--1804081	33	6.3	32	89	5	291	30	34	18	17	1.93
1809076--1809130	21	2.7	20	83	8	65	45	7	5	41	1.55
1809730--1809801	11	6.3	11	80	12	74	72	2	1	23	1.06
1809742--1809809	18	3.9	17	74	11	66	72	2	1	23	1.07
1809911--1809952	15	2.8	15	82	7	50	0	26	0	73	0.83
1810857--1810897	21	2.0	21	85	0	55	46	0	0	53	1.00
1812746--1812813	6	11.7	6	72	17	54	35	0	0	64	0.94
1812764--1812822	17	3.6	16	74	17	50	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1813813--1813863	18	2.8	18	82	14	61	39	0	0	60	0.97
1813829--1813933	17	6.3	17	71	14	85	40	0	0	59	1.04
1813842--1813936	32	2.8	34	81	7	106	42	0	1	56	1.06
1813959--1813995	17	2.2	17	90	0	56	51	0	0	48	1.00
1814283--1814323	20	2.0	20	86	9	57	43	2	2	51	1.28
1814303--1814338	16	2.2	16	90	9	56	44	0	0	55	0.99
1814371--1814399	6	4.8	6	100	0	58	17	0	0	82	0.66
1815197--1815231	2	17.5	2	100	0	70	51	0	0	48	1.00
1816416--1816476	23	2.6	24	78	19	67	42	0	0	57	0.98
1816438--1816483	24	1.9	24	82	8	58	47	0	0	52	1.00
1817678--1817868	77	2.5	77	87	2	267	45	10	16	27	1.80
1819738--1819777	17	2.3	18	91	4	64	75	2	2	20	1.04
1819736--1819778	18	2.4	19	84	11	63	74	2	2	20	1.04
1819846--1819876	2	15.5	2	100	0	62	0	48	0	51	1.00
1820371--1820420	14	3.5	14	76	15	57	60	0	2	38	1.09
1820387--1820441	23	2.4	23	81	6	67	65	0	0	34	0.93
1820924--1820962	16	2.6	14	81	14	51	46	0	0	53	1.00
1820926--1820957	16	2.0	16	100	0	64	43	0	0	56	0.99
1821568--1821622	21	2.6	21	100	0	110	27	21	14	36	1.93
1821660--1821710	20	2.5	21	93	3	86	41	5	17	35	1.74
1824210--1824322	51	2.2	51	88	3	165	28	23	12	36	1.91
1824262--1824761	79	6.3	79	71	14	269	28	23	11	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824261--1824541	82	3.5	81	76	11	213	28	22	11	38	1.88
1825511--1825538	12	2.3	12	100	0	56	53	21	0	25	1.46
1825902--1825976	39	2.0	38	87	10	109	54	2	0	42	1.14
1825917--1825977	21	3.0	21	71	24	60	52	3	0	44	1.17
1826026--1826093	23	2.8	24	82	12	70	57	0	0	42	0.98
1828671--1828710	15	2.9	15	75	17	50	7	17	15	60	1.57
1830479--1830560	42	2.0	42	87	0	119	20	18	40	20	1.92
1830845--1830870	3	8.7	3	100	0	52	34	30	34	0	1.58
1832194--1832278	44	2.0	43	84	11	111	36	2	2	58	1.24
1833130--1833224	45	2.2	45	83	12	119	55	0	0	44	0.99
1833169--1833233	25	2.6	26	74	18	66	60	0	0	40	0.97
1833188--1833233	11	4.5	11	76	17	55	63	0	0	36	0.95
1833914--1833965	21	2.5	22	84	6	72	42	0	0	57	0.98
1835309--1835385	40	1.9	39	81	2	91	44	0	1	54	1.08
1835416--1835454	17	2.4	17	86	4	53	61	0	0	38	0.96
1836073--1836113	13	3.2	13	83	16	50	39	0	0	60	0.96
1836085--1836113	14	2.1	14	93	6	51	41	0	0	58	0.98
1837972--1838127	80	1.9	81	88	1	233	48	0	5	46	1.24
1839107--1839146	21	1.9	21	90	10	64	62	0	0	37	0.95
1840591--1840637	20	2.3	21	85	7	62	51	0	0	48	1.00
1841933--1841970	19	2.0	19	100	0	76	21	10	31	36	1.87
1844236--1844294	31	1.9	30	82	3	73	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844389--1844423	17	2.1	17	94	5	63	57	2	5	34	1.37
1846647--1846699	20	2.7	20	85	5	63	37	1	5	54	1.35
1846748--1846839	11	9.0	11	67	16	56	30	3	1	65	1.16
1846741--1846784	23	1.9	23	86	9	63	34	0	0	65	0.93
1846793--1846839	16	2.9	16	75	18	53	27	0	2	70	0.99
1846923--1846970	21	2.3	21	89	7	71	25	16	12	45	1.82
1851237--1851294	15	3.8	15	80	10	64	44	0	0	55	0.99
1851257--1851289	17	1.9	17	93	0	57	51	0	0	48	1.00
1851271--1851329	28	2.2	25	85	8	73	62	0	0	37	0.95
1851285--1851326	21	2.0	22	90	4	68	59	0	0	40	0.97
1851276--1851338	28	2.2	29	76	21	71	58	0	0	41	0.98
1851739--1851786	15	3.2	15	77	19	55	43	0	2	54	1.12
1855512--1855556	16	2.8	16	83	9	56	55	6	4	33	1.46
1856973--1857004	5	6.8	5	86	13	50	37	0	0	62	0.95
1856932--1857071	57	2.7	48	72	23	108	45	0	2	52	1.18
1857112--1857152	19	2.2	19	86	4	57	36	0	4	58	1.20
1857540--1857611	26	2.7	26	75	14	67	52	1	4	41	1.29
1858888--1858931	3	14.7	3	95	0	79	63	0	2	34	1.07
1859021--1859062	18	2.3	18	87	0	57	40	0	0	59	0.97
1860692--1860717	13	2.0	13	100	0	52	7	0	7	84	0.77
1860940--1860971	14	2.4	13	94	5	55	21	0	3	75	0.95
1861868--1861909	19	2.2	19	91	8	68	26	0	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1862100--1862148	20	2.5	19	76	23	57	26	0	6	67	1.14
1862222--1862286	33	1.9	34	87	9	98	26	1	1	70	1.04
1862345--1862399	21	2.6	21	75	18	60	30	1	0	67	1.01
1862368--1862392	13	1.9	13	100	0	50	28	0	0	72	0.86
1862722--1862752	3	10.3	3	100	0	62	64	0	0	35	0.94
1863271--1863316	17	2.7	17	80	12	58	50	6	2	41	1.40
1864480--1864578	42	2.4	40	81	11	119	45	9	12	33	1.73
1865419--1865591	12	14.6	12	67	19	78	42	2	6	49	1.41
1865411--1865578	7	25.0	7	67	22	67	42	1	5	49	1.37
1866717--1866752	18	2.0	18	88	0	54	44	11	8	36	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