genome.fa.s9.2.7.7.80.10.50.1000.12.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: Scaffold9
Parameters: 2 7 7 80 10 50 1000
Length:  3883850

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  12  of  24  ( 2830 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)
1787538--1788125	49	12.3	49	80	11	666	25	25	17	32	1.97
1787533--1788105	92	6.1	92	88	5	858	25	25	17	32	1.97
1788799--1788855	13	3.9	13	76	24	60	35	14	17	33	1.90
1788779--1788879	32	3.1	32	95	1	175	34	11	16	36	1.86
1788777--1788874	19	5.8	18	70	28	81	33	12	16	37	1.86
1788897--1788976	34	2.4	34	100	0	160	35	17	12	35	1.88
1788896--1788976	13	7.1	12	71	28	70	35	17	12	34	1.87
1788987--1789113	52	2.4	52	90	2	202	36	18	16	28	1.93
1794955--1795024	16	4.4	16	82	7	79	61	5	0	32	1.20
1796100--1796306	79	2.6	78	82	4	245	30	17	28	24	1.97
1796258--1796334	28	2.8	28	85	0	91	22	19	35	23	1.96
1796312--1796699	51	7.5	50	71	10	244	33	11	25	29	1.91
1796219--1796699	261	1.8	261	94	0	847	32	13	25	28	1.93
1796522--1796590	28	2.5	27	86	9	86	27	18	30	23	1.98
1799061--1799086	13	2.0	13	100	0	52	38	15	15	30	1.88
1799073--1799114	21	2.0	21	100	0	84	28	19	9	42	1.82
1799131--1799182	13	3.5	13	73	26	50	36	17	13	32	1.89
1799139--1799201	19	3.7	18	76	24	73	36	17	12	33	1.88
1799131--1799203	32	2.3	32	97	0	137	35	17	12	34	1.88
1799170--1799231	19	3.2	19	73	13	63	27	16	14	41	1.87
1800026--1801042	55	17.9	55	80	11	992	25	19	26	27	1.99
1800470--1801075	61	10.3	60	83	7	653	27	19	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800547--1800634	28	3.2	28	61	15	65	27	19	26	27	1.99
1800989--1801171	101	1.8	101	88	4	280	26	19	29	24	1.99
1802145--1802241	1	97.0	1	77	0	95	0	1	10	88	0.56
1802147--1802241	8	11.6	8	84	13	106	0	1	10	88	0.57
1802148--1802237	19	4.8	18	86	10	119	0	1	11	87	0.59
1809941--1810061	52	2.3	52	97	0	224	28	18	18	34	1.94
1809941--1810078	52	2.6	51	89	4	206	29	17	18	34	1.94
1810135--1810204	33	2.1	33	89	0	104	40	14	11	34	1.82
1810160--1810184	13	1.9	13	100	0	50	32	16	16	36	1.90
1810617--1810824	79	2.6	79	82	3	240	29	16	28	24	1.97
1810778--1810853	27	2.8	27	84	6	91	23	19	32	23	1.97
1810835--1810952	51	2.4	49	83	13	154	33	11	23	30	1.91
1813297--1813322	13	2.0	13	100	0	52	38	15	15	30	1.88
1813276--1813342	34	2.0	33	91	2	107	44	13	16	25	1.84
1813374--1813470	19	5.8	18	72	27	97	37	17	12	32	1.87
1813367--1813468	32	3.2	32	98	0	195	36	17	12	33	1.88
1813393--1813449	13	3.9	13	76	24	60	33	17	14	35	1.90
1814381--1814526	29	5.2	28	61	18	72	21	19	30	28	1.98
1814305--1815071	55	13.3	60	87	4	839	24	20	28	26	1.99
1818019--1818044	13	2.0	13	100	0	52	38	15	15	30	1.88
1818001--1818064	32	2.0	33	90	3	103	39	18	14	28	1.90
1819333--1819402	33	2.1	33	86	0	95	35	10	14	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1819441--1819465	13	1.9	13	100	0	50	32	16	16	36	1.90
1819474--1819598	52	2.4	52	95	0	223	36	18	17	28	1.94
1820398--1820425	9	3.1	9	100	0	56	46	21	10	21	1.81
1825494--1825524	15	2.1	15	93	0	53	48	16	22	12	1.80
1827603--1827628	13	2.0	13	100	0	52	30	15	15	38	1.88
1827749--1827794	21	2.2	20	81	11	58	32	19	4	43	1.71
1830155--1830206	19	2.7	20	87	6	79	38	19	13	28	1.89
1832846--1833057	80	2.7	79	85	1	271	29	16	29	24	1.97
1833007--1833081	27	2.7	27	87	2	96	24	18	30	26	1.98
1833084--1833181	51	1.9	51	84	12	130	37	9	20	32	1.84
1835550--1835575	13	2.0	13	100	0	52	38	15	15	30	1.88
1835529--1835595	34	2.0	33	91	2	107	44	13	16	25	1.84
1835619--1835670	13	3.5	13	73	26	50	36	17	13	32	1.89
1835627--1835691	19	3.7	19	75	23	79	38	16	12	32	1.86
1835619--1835689	32	2.2	32	97	0	133	36	18	12	32	1.88
1835727--1835784	21	2.7	22	81	7	75	32	15	15	36	1.89
1844553--1844755	79	2.6	78	79	3	210	31	14	26	27	1.95
1844710--1844778	28	2.5	28	85	0	84	26	17	31	24	1.97
1844656--1845150	262	1.9	262	93	0	864	32	12	26	28	1.93
1844969--1845040	28	2.6	28	86	4	92	23	19	34	22	1.96
1844766--1845151	52	7.4	52	71	9	257	32	11	26	29	1.91
1846711--1846778	19	3.9	19	78	21	85	35	11	14	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1846713--1846775	32	2.0	32	96	0	117	34	12	15	36	1.86
1846732--1846756	13	1.9	13	100	0	50	36	16	16	32	1.90
1846818--1846843	13	2.0	13	100	0	52	30	15	15	38	1.88
1846798--1846864	33	2.0	33	88	0	98	25	14	16	43	1.86
1849316--1849392	28	2.8	28	87	0	100	23	33	19	23	1.97
1849267--1849471	107	1.9	107	81	5	243	26	28	15	28	1.96
1849346--1849550	79	2.6	79	81	3	225	24	30	16	28	1.96
1855685--1855787	36	3.2	36	60	28	84	26	25	19	29	1.99
1855682--1856886	55	21.5	55	89	5	1667	28	29	19	22	1.98
1856047--1856129	27	3.0	27	60	16	62	28	30	19	21	1.98
1857397--1857464	19	3.9	19	78	21	85	35	11	14	38	1.83
1857399--1857461	32	2.0	32	96	0	117	34	12	15	36	1.86
1857418--1857442	13	1.9	13	100	0	50	36	16	16	32	1.90
1857504--1857529	13	2.0	13	100	0	52	30	15	15	38	1.88
1857484--1857550	33	2.0	33	88	0	98	25	14	16	43	1.86
1860000--1860076	28	2.8	28	87	0	100	23	33	19	23	1.97
1859951--1860155	107	1.9	107	81	5	243	26	28	15	28	1.96
1860030--1860234	79	2.6	79	81	3	225	24	30	16	28	1.96
1862267--1862292	13	2.0	13	100	0	52	38	15	15	30	1.88
1862279--1862320	21	2.0	21	100	0	84	28	19	9	42	1.82
1862364--1862390	13	2.1	13	100	0	54	37	14	7	40	1.74
1863218--1863874	55	11.4	54	82	10	639	26	19	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1863290--1863433	29	5.2	29	63	18	99	22	19	29	28	1.98
1863383--1863851	61	7.9	60	86	4	596	28	18	26	26	1.98
1863215--1863874	116	5.7	115	84	7	809	26	19	26	27	1.99
1864126--1864185	17	3.5	17	71	8	50	30	15	6	48	1.70
1864335--1864386	20	2.6	20	93	0	86	40	0	7	51	1.30
1865897--1865929	11	3.0	11	100	0	66	27	9	18	45	1.79
1866675--1866714	19	2.0	22	85	14	59	55	10	15	20	1.68
1867629--1867862	119	2.0	119	87	3	337	30	15	27	26	1.96
1875782--1875826	2	22.5	2	90	0	63	44	2	4	48	1.35
1877052--1877125	20	3.7	20	78	8	69	29	16	13	40	1.86
1879078--1879120	20	2.1	20	82	4	50	9	27	41	20	1.83
1879551--1879588	13	2.9	13	92	0	58	34	15	15	34	1.90
1879577--1879641	20	3.6	20	69	26	72	46	12	15	26	1.81
1879564--1879644	33	2.5	33	100	0	162	41	12	16	29	1.84
1879597--1879621	13	1.9	13	100	0	50	32	16	16	36	1.90
1881702--1881732	15	2.1	15	93	0	53	12	22	16	48	1.80
1885800--1885825	13	2.0	13	100	0	52	30	15	15	38	1.88
1885780--1885843	32	2.0	33	93	3	112	28	12	15	43	1.83
1885780--1885843	19	3.6	19	72	25	68	28	12	15	43	1.83
1885872--1885947	20	3.8	19	79	8	71	31	17	13	38	1.88
1885895--1885950	20	2.8	20	89	5	78	30	16	14	39	1.88
1890228--1890268	18	2.2	19	86	8	57	39	0	0	60	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894547--1894621	30	2.3	33	76	19	86	33	5	0	61	1.19
1895198--1895241	21	2.1	21	83	8	54	52	2	0	45	1.13
1895497--1895557	16	3.6	16	75	16	59	45	1	0	52	1.10
1897503--1897688	93	2.0	93	95	2	338	36	22	12	29	1.91
1899203--1899248	23	2.0	23	87	8	67	58	0	2	39	1.10
1902767--1902929	86	1.9	86	83	2	211	26	26	12	33	1.93
1902785--1903013	86	2.7	87	76	8	220	28	23	11	37	1.89
1904429--1904484	20	2.8	20	83	0	67	46	10	14	28	1.78
1904492--1904586	20	4.8	20	90	0	145	27	14	11	46	1.79
1906911--1907361	79	5.7	79	80	5	371	28	22	11	38	1.89

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