genome.fa.s13.2.7.7.80.10.50.1000.10.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: Scaffold13
Parameters: 2 7 7 80 10 50 1000
Length:  2744999

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  10  of  15  ( 1714 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)
1841937--1842000	26	2.5	26	82	9	80	25	21	1	51	1.57
1842211--1842239	13	2.2	13	100	0	58	62	17	0	20	1.33
1844199--1844250	8	6.2	8	77	6	50	19	1	3	75	1.06
1844646--1844690	23	2.0	23	82	8	56	46	6	4	42	1.50
1844796--1844840	3	15.0	3	100	0	90	66	0	0	33	0.92
1848396--1848429	11	3.2	11	91	4	52	20	0	5	73	1.04
1848825--1848913	8	10.5	8	70	14	54	76	5	2	15	1.07
1848825--1848915	18	5.2	17	69	12	67	76	5	2	15	1.06
1848825--1848916	27	3.5	25	77	11	78	76	5	2	16	1.08
1850016--1850062	13	3.7	13	77	13	53	48	40	8	2	1.45
1851924--1852192	79	3.4	77	79	7	281	28	24	13	32	1.94
1858590--1858635	15	2.9	16	83	6	58	23	6	2	67	1.25
1860287--1860346	20	2.9	21	78	19	72	40	10	15	35	1.80
1866476--1866516	19	2.0	20	90	9	66	19	0	0	80	0.71
1866474--1866519	16	3.1	15	84	12	60	21	0	0	78	0.76
1866706--1866780	28	2.7	28	87	0	105	18	20	28	33	1.96
1866770--1866817	26	1.9	25	87	8	71	20	18	31	29	1.97
1866781--1866836	26	2.2	26	83	0	67	25	16	26	32	1.96
1866794--1867010	82	2.6	82	82	1	202	22	19	29	29	1.98
1866878--1867057	82	2.2	82	81	7	213	21	20	29	28	1.98
1867632--1867661	2	15.0	2	100	0	60	50	0	0	50	1.00
1871973--1872011	21	1.9	20	94	5	69	35	15	12	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1872070--1872164	19	5.6	19	69	27	88	33	11	21	33	1.89
1872070--1872177	32	3.4	32	94	0	180	34	12	19	33	1.90
1872121--1872145	13	1.9	13	100	0	50	36	16	16	32	1.90
1872216--1872243	13	2.2	13	100	0	56	28	14	17	39	1.89
1872196--1872261	33	2.0	33	85	5	89	28	16	13	40	1.87
1872277--1872432	82	1.9	82	94	0	276	29	19	13	37	1.90
1875754--1875779	13	2.0	13	100	0	52	30	15	15	38	1.88
1875734--1875799	33	2.0	33	87	0	96	25	15	16	42	1.87
1878353--1878440	43	2.0	44	86	6	126	30	25	12	31	1.92
1884250--1885240	55	17.4	55	84	8	1113	27	28	19	24	1.99
1885025--1885166	28	5.1	29	62	16	77	28	28	19	23	1.98
1885920--1885996	21	3.7	21	89	3	111	35	12	16	35	1.88
1888468--1888540	27	2.6	28	82	2	85	23	34	21	20	1.97
1888572--1888659	43	2.0	44	86	2	124	31	26	11	30	1.91
1894841--1896529	55	29.4	56	83	9	1767	26	28	20	24	1.99
1894842--1896529	116	14.7	113	85	8	1808	26	28	20	25	1.99
1894841--1896529	171	9.8	172	84	8	1898	26	28	20	24	1.99
1896314--1896455	28	5.1	29	62	16	77	28	28	19	23	1.98
1897210--1897267	21	2.8	21	100	0	116	31	10	20	37	1.86
1897208--1897286	21	3.8	21	88	3	97	34	13	17	34	1.90
1897397--1897422	13	2.0	13	100	0	52	30	15	15	38	1.88
1897377--1897442	33	2.0	33	87	0	96	25	15	16	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1899693--1899756	22	3.0	22	80	17	80	23	37	21	17	1.94
1899788--1899875	43	2.0	44	84	6	117	31	25	11	31	1.91
1903930--1904057	52	2.5	51	92	3	211	31	15	16	36	1.90
1904131--1904197	33	2.0	33	88	0	98	40	14	11	32	1.83
1904153--1904177	13	1.9	13	100	0	50	32	16	16	36	1.90
1905075--1905565	31	15.9	31	78	9	443	24	26	15	34	1.95
1905065--1905366	123	2.5	122	87	3	444	24	26	13	34	1.93
1905418--1905565	30	4.9	30	83	8	174	24	26	17	31	1.97
1905065--1905565	92	5.4	92	76	12	436	24	26	14	34	1.94
1905072--1905567	61	8.0	62	75	10	455	24	26	14	34	1.94
1905540--1905834	33	9.1	33	77	6	289	19	29	13	37	1.90
1905507--1905746	127	1.9	127	82	2	300	21	30	13	34	1.92
1905634--1905686	27	2.0	27	92	0	88	22	33	16	26	1.96
1905540--1905841	66	4.7	66	79	6	330	19	29	13	36	1.91
1905832--1905932	30	3.4	29	81	8	116	34	28	16	19	1.94
1905851--1905931	28	2.8	29	81	12	94	35	30	14	18	1.91
1905943--1906443	49	10.8	49	72	14	346	27	26	16	28	1.97
1906000--1906347	88	4.0	88	91	0	534	28	27	18	26	1.98
1906137--1906287	39	3.6	39	70	16	113	29	28	17	24	1.97
1906264--1906603	52	6.7	49	77	7	218	27	25	14	32	1.94
1906260--1906505	101	2.4	101	82	3	280	26	26	15	32	1.95
1907234--1907288	19	2.7	21	80	5	69	40	14	14	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1907302--1907357	20	2.8	21	89	5	80	32	14	12	41	1.83
1907367--1907408	20	2.0	20	86	4	57	33	16	11	38	1.86
1912045--1912086	17	2.5	17	96	0	75	28	42	9	19	1.82
1912778--1912863	19	4.8	18	68	21	56	36	10	16	37	1.83
1912799--1912869	32	2.2	32	97	0	133	35	8	16	39	1.79
1912888--1912929	21	2.0	21	95	0	75	40	9	19	30	1.83
1912959--1913001	20	2.1	21	91	4	70	32	25	11	30	1.91
1915398--1915494	51	1.9	51	85	4	133	31	24	9	34	1.87
1915471--1915657	75	2.4	77	84	7	245	25	27	15	31	1.96
1921691--1921715	13	1.9	13	100	0	50	36	16	16	32	1.90
1921671--1921740	33	2.1	33	89	0	104	34	11	14	40	1.82
1921781--1921805	13	1.9	13	100	0	50	32	16	16	36	1.90
1921814--1921934	52	2.3	52	95	0	215	34	17	18	29	1.94
1929199--1929236	14	2.7	14	95	0	67	89	10	0	0	0.49
1929201--1929236	18	2.1	18	94	5	65	91	8	0	0	0.41
1930221--1930365	31	4.7	31	88	6	188	24	29	18	26	1.98
1930369--1930860	34	14.8	34	83	8	611	20	35	13	30	1.91
1931268--1931293	13	2.0	13	100	0	52	38	15	15	30	1.88
1931713--1931738	12	2.2	12	100	0	52	50	7	0	42	1.31
1932904--1932928	13	1.9	13	100	0	50	32	16	16	36	1.90
1936041--1936107	37	1.9	35	88	11	102	29	25	11	32	1.92
1937049--1937074	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1937533--1937599	37	1.9	35	88	11	102	32	11	25	29	1.92
1937850--1937960	33	3.2	36	85	10	151	18	33	9	37	1.84
1937957--1938054	32	3.1	31	91	5	160	27	37	18	16	1.92
1937962--1938054	33	2.9	32	93	6	161	29	36	19	15	1.92
1938059--1938525	49	9.7	49	83	6	571	24	25	17	32	1.97
1938059--1938591	98	5.4	98	89	5	721	24	25	17	33	1.96
1938255--1938525	92	2.9	92	94	1	461	25	23	18	32	1.97
1938439--1938822	67	6.7	55	72	14	255	24	23	14	37	1.92
1938439--1938833	171	2.3	171	94	1	682	24	23	14	37	1.92
1939455--1939479	13	1.9	13	100	0	50	36	16	16	32	1.90
1939435--1939504	33	2.1	33	89	0	104	34	11	14	40	1.82
1939545--1939569	13	1.9	13	100	0	50	32	16	16	36	1.90
1939578--1939698	52	2.3	52	97	0	224	34	18	18	28	1.94
1943601--1943630	14	2.1	14	100	0	60	30	6	23	40	1.80
2112637--2112684	11	4.4	10	80	17	51	75	2	20	2	1.02
2112993--2113067	23	3.2	23	66	23	66	24	1	17	57	1.48
2112994--2113070	24	3.2	24	66	23	72	23	1	18	57	1.48
2112969--2113069	47	2.1	47	100	0	202	22	1	18	56	1.52
2119690--2119716	13	2.1	13	100	0	54	29	14	14	40	1.86
2125209--2125248	13	3.1	13	85	0	53	35	17	10	37	1.83
2125376--2125415	21	2.0	21	90	5	64	32	20	0	47	1.50
2127365--2127391	13	2.1	13	100	0	54	33	7	44	14	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2127728--2127825	33	3.0	33	91	4	146	32	14	13	39	1.84
2127791--2127843	19	2.8	20	80	8	65	35	15	15	33	1.88
2127876--2127930	20	2.8	20	85	0	74	36	12	10	40	1.79
2130171--2130363	48	4.0	47	76	12	183	22	20	13	43	1.87
2130170--2130390	47	4.6	47	77	12	180	23	19	13	42	1.87
2130490--2131049	126	4.5	125	75	7	393	16	22	16	44	1.86
2130526--2131073	42	13.1	42	73	7	215	16	22	17	43	1.88
2132788--2132828	22	1.9	21	95	5	73	80	0	0	19	0.71
2137284--2138160	437	2.0	437	89	1	1346	26	23	15	35	1.94
2141484--2141526	20	2.2	20	87	4	61	62	4	13	18	1.48

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15