genome.fa.s41.2.7.7.80.10.50.1000.15.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: Scaffold41
Parameters: 2 7 7 80 10 50 1000
Length:  2798036

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

This is table  15  of  21  ( 2447 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)
1726175--1726228	20	2.7	20	100	0	108	35	11	18	35	1.86
1734119--1734180	27	2.3	27	88	8	99	24	27	14	33	1.94
1734029--1734331	151	2.0	151	86	1	428	24	27	15	33	1.95
1734258--1735455	28	42.8	28	86	4	1386	26	29	14	29	1.95
1734258--1735279	83	12.3	83	87	3	1371	25	29	14	30	1.95
1735208--1735836	121	5.3	119	81	10	622	29	30	16	23	1.96
1734267--1735802	28	54.0	27	82	10	999	27	30	15	27	1.96
1735220--1735822	181	3.4	177	85	6	699	30	30	16	22	1.96
1735241--1735815	302	1.9	297	89	1	880	30	30	16	22	1.96
1735910--1735980	25	3.0	24	62	15	58	22	29	16	30	1.96
1735910--1736063	48	3.2	48	91	1	240	20	29	16	33	1.95
1736802--1736851	20	2.5	20	90	0	73	34	12	14	40	1.82
1740755--1740797	19	2.3	19	91	0	68	67	0	2	30	1.03
1741058--1741112	12	4.8	11	78	17	51	52	1	0	45	1.11
1741066--1741113	6	7.3	6	82	17	60	54	2	0	43	1.12
1744426--1744454	14	2.0	15	93	6	51	62	0	0	37	0.96
1747121--1747160	18	2.2	18	90	4	62	5	25	0	70	1.08
1747116--1747159	22	2.0	22	82	8	54	4	27	0	68	1.09
1747846--1747975	52	2.5	52	81	2	145	30	16	26	26	1.96
1748105--1748916	64	12.8	62	71	9	334	24	16	28	30	1.97
1748103--1748954	31	27.0	32	75	8	458	25	16	28	29	1.97
1748105--1748504	126	3.2	123	79	6	313	25	18	27	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748478--1748566	33	2.7	33	96	0	160	31	14	20	33	1.93
1748290--1748535	127	1.9	127	80	3	289	26	17	26	29	1.97
1748489--1748950	128	3.6	127	84	4	540	25	14	29	30	1.95
1748928--1749020	28	3.2	28	80	8	89	27	21	25	24	1.99
1748749--1749020	31	8.9	29	73	13	131	26	17	27	27	1.97
1749097--1749883	31	25.0	32	76	8	542	24	16	29	29	1.97
1749095--1749882	63	12.5	63	73	8	505	24	16	29	29	1.97
1748103--1749886	191	9.5	188	71	10	813	25	16	28	29	1.97
1749773--1750245	28	16.4	28	76	9	346	24	17	28	29	1.97
1749864--1750245	142	2.7	141	84	5	484	23	17	28	30	1.97
1749839--1750245	114	3.6	113	76	7	351	24	17	28	29	1.98
1751569--1751611	14	3.2	13	77	9	50	4	9	2	83	0.87
1751556--1751611	28	2.0	27	89	6	85	5	12	5	76	1.12
1756173--1756209	19	1.9	19	100	0	74	29	16	37	16	1.90
1758119--1758168	19	2.5	21	90	6	77	38	12	16	34	1.85
1758223--1758248	13	2.0	13	100	0	52	30	15	15	38	1.88
1758235--1758329	20	4.8	20	100	0	190	25	20	14	40	1.90
1760655--1760943	51	5.6	51	84	1	355	30	26	11	32	1.91
1760655--1760941	102	2.8	103	86	3	393	30	26	10	32	1.90
1761007--1761084	28	2.8	28	88	2	120	20	29	20	29	1.98
1767209--1767532	61	5.3	60	88	3	443	25	29	20	25	1.99
1767203--1767534	183	1.8	184	89	2	524	24	29	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1767554--1768079	55	9.4	55	89	4	669	27	27	21	23	1.99
1767554--1768294	165	4.4	165	78	13	739	26	26	20	26	1.99
1768003--1768183	95	1.9	93	89	2	281	24	25	20	29	1.99
1768094--1768294	61	3.4	60	84	6	234	25	23	20	30	1.99
1769200--1769257	13	5.0	13	72	23	58	36	13	18	31	1.90
1769181--1769448	32	8.4	32	80	11	291	37	14	17	29	1.90
1769160--1769275	19	6.6	19	73	23	103	38	12	17	31	1.87
1769323--1769435	19	6.5	19	72	24	97	39	13	16	30	1.87
1769305--1769403	53	1.9	51	87	4	144	39	14	15	31	1.87
1769360--1769417	13	5.0	13	72	23	58	36	13	18	31	1.90
1769163--1769492	160	2.1	160	100	0	660	38	15	17	29	1.90
1769160--1769435	19	16.7	18	65	29	95	38	14	17	30	1.89
1771840--1772115	51	5.6	50	74	15	236	28	25	12	33	1.92
1771925--1772102	91	1.9	92	86	1	250	28	23	12	35	1.91
1771974--1772050	40	1.9	40	89	5	120	25	18	14	41	1.88
1772011--1772113	52	2.0	51	84	5	136	30	24	11	33	1.91
1772123--1772280	79	2.0	79	81	15	184	29	25	12	32	1.93
1777028--1777084	6	9.3	6	83	9	71	0	17	0	82	0.67
1777025--1777084	23	2.6	23	86	5	77	0	16	0	83	0.65
1777029--1777085	30	1.9	30	92	7	98	0	19	0	80	0.71
1777040--1777090	24	2.2	23	82	3	57	0	23	0	76	0.79
1777580--1777614	14	2.5	13	90	9	52	8	2	0	88	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777577--1777616	8	5.2	8	82	11	57	10	2	0	87	0.63
1777604--1777667	25	2.7	24	75	4	67	17	10	1	70	1.24
1777604--1777651	25	1.9	25	86	0	69	16	10	0	72	1.10
1782605--1782629	3	8.3	3	100	0	50	36	0	32	32	1.58
1789920--1789971	20	2.6	20	93	0	95	26	15	15	42	1.87
1794806--1794844	20	1.9	21	94	5	71	23	10	5	61	1.48
1796519--1796692	90	1.9	90	80	4	199	35	22	13	29	1.92
1802950--1802980	2	15.5	2	93	0	53	45	0	3	51	1.17
1803544--1803660	29	4.1	29	80	9	125	65	12	6	14	1.45
1803544--1803660	58	2.0	57	83	4	146	65	12	6	14	1.45
1806762--1806786	13	1.9	13	100	0	50	44	16	8	32	1.76
1815086--1815114	14	2.1	14	93	6	51	44	6	13	34	1.71
1815574--1815638	33	2.0	32	88	11	96	33	15	18	32	1.92
1815594--1815618	13	1.9	13	100	0	50	36	16	16	32	1.90
1817308--1817416	58	1.9	57	84	3	148	59	11	8	21	1.57
1817308--1817425	57	2.1	57	82	3	139	61	11	8	19	1.55
1817817--1817853	16	2.2	17	95	4	67	21	10	16	51	1.74
1821314--1821344	2	15.5	2	100	0	62	48	0	0	51	1.00
1823259--1823311	24	2.2	23	90	6	79	67	0	18	13	1.22
1823340--1823388	21	2.3	21	92	0	80	24	14	12	48	1.77
1826819--1826844	13	2.0	13	100	0	52	38	15	15	30	1.88
1829071--1829115	21	2.1	21	84	8	56	53	4	20	22	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1830919--1830949	15	2.1	15	93	0	53	48	19	19	12	1.81
1833027--1833065	13	3.0	13	100	0	78	30	15	15	38	1.88
1835621--1835646	13	2.0	13	100	0	52	38	15	15	30	1.88
1847886--1848346	233	2.0	234	93	0	798	34	20	10	34	1.87
1855028--1855461	157	2.8	155	79	6	408	38	10	23	27	1.87
1855035--1855547	78	6.5	77	73	10	290	37	10	23	28	1.88
1855035--1855547	157	3.3	156	77	5	365	37	10	23	28	1.88
1858736--1858840	51	2.1	51	98	0	201	35	20	19	25	1.95
1858641--1858821	79	2.3	77	77	9	186	32	17	25	24	1.96
1858657--1858900	130	1.9	130	81	3	294	30	17	25	26	1.97
1859041--1859170	49	2.6	49	80	6	154	35	12	23	29	1.91
1861516--1861557	21	2.0	21	100	0	84	28	19	9	42	1.82
1861574--1861625	13	3.5	13	73	26	50	36	17	13	32	1.89
1861582--1861644	19	3.6	19	76	24	84	38	15	12	33	1.86
1861574--1861646	32	2.3	32	100	0	146	36	16	12	34	1.86
1862429--1862991	55	10.0	55	86	9	724	24	20	27	27	1.99
1862677--1862818	28	5.1	28	61	19	73	26	21	25	27	1.99
1862429--1862990	172	3.3	170	86	5	755	24	20	27	27	1.99
1862848--1862936	29	3.2	28	66	15	76	23	20	30	25	1.98
1862875--1862960	26	3.2	26	66	15	75	23	20	29	26	1.99
1862421--1863020	171	3.5	170	86	5	822	25	20	27	27	1.99
1862936--1863120	100	1.9	100	89	0	289	25	20	29	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864083--1864180	1	98.0	1	77	0	97	0	3	8	88	0.60
1864083--1864179	10	9.5	10	88	6	108	0	3	8	88	0.61
1864083--1864180	18	5.6	17	82	10	117	0	3	8	88	0.60
1864083--1864180	19	5.4	18	81	6	110	0	3	8	88	0.60
1874494--1874520	4	6.8	4	100	0	54	77	0	0	22	0.76
1876589--1876790	79	2.5	79	81	4	219	30	16	27	25	1.97
1876744--1876821	28	2.7	29	82	5	88	24	19	33	23	1.97
1876665--1876869	108	1.9	108	81	4	252	30	16	27	25	1.96
1876804--1876920	51	2.3	51	80	2	137	29	12	27	30	1.93
1876933--1877115	52	3.6	50	81	7	203	34	9	25	30	1.88

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