genome.fa.s414.2.7.7.80.10.50.1000.12.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: Scaffold414
Parameters: 2 7 7 80 10 50 1000
Length:  2018024

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

This is table  12  of  13  ( 1553 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)
1772783--1772849	33	2.0	33	88	0	98	25	14	16	43	1.86
1773891--1774232	52	6.5	53	69	17	178	28	26	12	31	1.93
1774005--1774080	27	2.8	28	89	2	109	23	34	21	21	1.97
1774216--1774292	28	2.8	28	85	0	91	23	32	19	24	1.97
1773898--1774297	212	1.9	212	89	3	617	27	27	13	31	1.94
1786791--1786860	15	4.7	15	74	12	56	84	5	10	0	0.78
1786789--1786843	16	3.4	16	87	2	65	85	9	5	0	0.74
1786809--1786843	13	2.6	13	86	4	52	88	8	2	0	0.61
1787847--1788372	28	19.2	26	61	17	102	28	32	19	19	1.96
1787800--1788589	55	14.4	55	92	3	1256	29	30	20	19	1.97
1787995--1788082	29	3.1	29	61	26	71	26	35	19	19	1.95
1788613--1788655	23	2.0	22	90	9	70	58	4	11	25	1.52
1790488--1790561	27	2.7	28	89	2	105	22	35	21	20	1.96
1790544--1790717	52	3.3	53	76	10	162	28	26	13	32	1.93
1790697--1790773	28	2.8	28	85	0	91	23	32	19	24	1.97
1791839--1791901	32	2.0	32	93	0	108	38	15	11	34	1.83
1791838--1791903	19	3.8	19	73	22	72	40	15	10	33	1.81
1805201--1805231	12	2.7	12	95	5	55	87	12	0	0	0.55
1805207--1805238	16	1.9	17	93	6	57	87	12	0	0	0.54
1806519--1806921	66	6.2	64	75	13	331	20	27	11	39	1.88
1806519--1806921	34	12.4	32	74	10	316	20	27	11	39	1.88
1806519--1806921	100	4.1	99	74	12	361	20	27	11	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1806681--1806802	59	2.1	58	83	6	147	20	26	13	40	1.89
1806545--1806949	192	2.1	191	81	7	471	20	27	11	40	1.87
1806906--1806962	27	2.1	27	83	0	69	22	24	10	42	1.85
1807016--1807108	34	2.8	33	77	4	98	21	30	10	37	1.87
1806841--1807223	172	2.2	172	84	2	482	21	27	11	39	1.87
1807158--1807266	32	3.9	26	75	14	94	22	27	14	34	1.94
1807063--1807222	81	2.0	82	85	3	216	18	25	12	43	1.85
1807144--1807266	59	2.1	60	87	3	178	21	26	15	37	1.93
1807276--1807340	33	1.9	34	81	9	80	29	33	16	20	1.95
1807428--1807618	43	4.2	43	73	13	114	26	24	16	32	1.96
1807387--1807856	95	4.9	95	85	3	448	25	25	16	32	1.96
1807497--1807856	147	2.5	144	83	5	438	24	26	16	31	1.96
1807340--1808022	52	13.8	49	77	9	577	25	25	15	33	1.96
1807635--1807860	49	4.7	45	89	1	209	23	27	16	31	1.96
1807961--1808081	61	2.0	61	90	0	188	27	23	13	35	1.92
1811178--1811203	13	2.0	13	100	0	52	30	15	15	38	1.88
1811242--1811317	21	3.7	21	80	3	100	28	17	11	42	1.84
1811263--1811335	20	3.6	20	81	3	101	31	19	13	35	1.91
1811242--1811335	41	2.3	41	98	0	179	29	18	12	39	1.88
1811953--1812015	32	2.0	32	100	0	126	46	25	3	25	1.68
1813809--1813847	13	3.0	13	96	0	69	35	15	17	30	1.91
1813833--1813911	20	3.7	20	70	20	70	45	16	12	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815921--1815951	15	2.1	15	93	0	53	12	22	16	48	1.80
1820013--1820038	13	2.0	13	100	0	52	30	15	15	38	1.88
1820077--1820152	21	3.7	21	80	3	100	28	17	11	42	1.84
1820098--1820170	20	3.6	20	81	3	101	31	19	13	35	1.91
1820077--1820170	41	2.3	41	98	0	179	29	18	12	39	1.88
1828436--1828590	78	2.0	78	80	9	174	38	10	20	30	1.86
1832877--1832921	23	2.0	23	90	0	72	37	22	13	26	1.91
1834594--1834654	17	3.6	17	77	4	61	40	0	0	59	0.98
1838957--1838990	13	2.5	13	90	4	50	29	0	0	70	0.87
1838938--1838985	24	2.0	24	88	4	71	31	0	2	66	1.03
1839516--1839581	32	2.0	35	88	8	102	56	3	0	40	1.15
1839516--1839569	18	3.2	18	69	28	55	55	3	0	40	1.17
1840668--1840712	23	2.0	23	90	0	72	44	0	0	55	0.99
1841275--1841307	15	2.2	15	100	0	66	30	6	0	63	1.18
1841781--1841812	2	16.0	2	100	0	64	50	0	0	50	1.00
1842913--1842976	22	3.0	22	73	15	62	39	4	3	53	1.38
1843552--1843589	20	2.0	20	89	5	60	52	0	0	47	1.00
1843543--1843591	17	2.8	17	80	17	55	55	0	0	44	0.99
1843579--1843610	15	2.1	15	94	0	55	62	9	0	28	1.26
1843972--1844001	16	1.9	15	93	6	51	63	0	0	36	0.95
1845230--1845283	23	2.4	22	75	9	54	27	0	0	72	0.85
1847493--1847562	27	2.7	26	79	16	74	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1847483--1847564	29	2.9	28	75	12	85	43	1	0	54	1.07
1849795--1849836	21	1.9	21	90	9	66	50	2	0	47	1.14
1849964--1849996	14	2.3	15	90	10	52	3	18	0	78	0.87
1850322--1850359	19	2.0	19	100	0	76	47	15	5	31	1.68
1850902--1850964	24	2.7	23	80	4	72	52	12	7	26	1.67
1850897--1850964	23	2.9	23	80	4	82	48	11	8	30	1.70
1851002--1851100	42	2.2	43	79	13	103	58	3	1	37	1.20
1852108--1852192	28	3.0	28	75	5	82	55	1	0	43	1.07
1852111--1852199	14	6.3	14	68	17	58	57	1	0	41	1.06
1852709--1852758	17	2.8	18	82	11	59	50	0	2	48	1.12
1853711--1853769	17	3.8	16	74	17	61	35	0	0	64	0.94
1853988--1854073	17	4.9	19	68	16	53	46	0	0	53	1.00
1856851--1856902	17	3.1	16	84	10	68	67	0	0	32	0.91
1857072--1857119	26	1.9	24	83	8	60	70	4	0	25	1.04
1857080--1857122	15	2.9	15	79	3	52	72	4	0	23	1.04
1857191--1857228	14	2.7	15	84	12	53	47	2	0	50	1.15
1857927--1857966	21	1.9	21	85	10	55	42	2	2	52	1.28
1858440--1858465	13	2.0	13	100	0	52	30	0	23	46	1.53
1865407--1865454	22	2.2	22	77	3	53	43	4	6	45	1.48
1873065--1873103	21	1.9	20	84	5	51	61	0	0	38	0.96
1875318--1875365	14	3.4	14	80	13	53	70	0	0	29	0.87
1875318--1875355	14	2.6	16	88	12	55	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1875570--1875633	31	2.0	33	93	6	114	42	4	6	46	1.49
1876876--1876931	29	1.9	29	85	7	78	71	7	5	16	1.27
1877911--1877995	45	1.9	43	88	4	125	48	9	11	30	1.71
1880504--1880542	19	2.1	19	85	9	53	33	0	0	66	0.92
1880504--1880582	9	8.1	9	74	20	54	35	1	0	63	1.03
1880494--1880545	14	3.5	15	75	17	54	34	0	0	65	0.93
1881873--1881910	14	2.9	13	84	7	51	63	0	0	36	0.95
1881871--1881912	13	3.1	14	83	13	52	61	0	0	38	0.96
1881869--1881940	36	2.0	35	84	12	94	59	1	0	38	1.06
1881883--1881989	55	1.9	55	83	7	137	58	1	0	38	1.15
1891486--1891614	52	2.5	52	94	2	224	29	17	17	35	1.93
1891623--1891647	13	1.9	13	100	0	50	36	16	16	32	1.90
1891690--1891819	19	7.8	18	70	29	110	37	17	12	32	1.87
1891708--1891798	13	6.1	13	71	26	65	37	17	13	31	1.88
1891685--1891818	32	4.2	32	95	0	232	37	17	11	32	1.87
1891855--1891906	21	2.5	21	100	0	104	36	17	11	34	1.86
1892135--1892211	32	2.4	32	80	0	82	36	9	19	35	1.84
1892154--1892201	16	3.0	16	79	11	62	35	6	20	37	1.78
1892157--1892221	32	2.0	32	85	5	87	33	9	20	36	1.84
1892323--1892378	16	3.5	16	80	0	58	35	7	25	32	1.83
1895038--1895074	17	2.2	18	90	9	60	48	10	0	40	1.38
1895228--1895297	34	2.1	34	100	0	140	38	8	8	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1895474--1895514	19	2.1	20	90	4	66	43	14	0	41	1.45
1895646--1895684	2	19.5	2	100	0	78	51	0	0	48	1.00
1896263--1896287	2	12.5	2	100	0	50	48	0	0	52	1.00
1898461--1898564	13	8.1	13	70	20	58	43	2	1	51	1.27
1898483--1898577	13	6.9	14	68	23	51	37	3	1	57	1.21
1900494--1900531	17	2.4	15	87	12	58	50	0	2	47	1.15
1900886--1900926	18	2.3	18	91	4	66	53	0	0	46	1.00
1901827--1901907	11	7.0	11	70	25	51	40	3	0	55	1.17
1901826--1901878	14	3.8	14	78	14	56	37	3	0	58	1.16
1902007--1902038	16	2.1	16	94	5	57	53	0	0	46	1.00

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