genome.fa.s14.2.7.7.80.10.50.1000.6.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: scaffold_14 ID=scaffold_14-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  2042280

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 804 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)
1477502--1477595	37	2.5	37	84	3	109	32	9	18	39	1.83
1485227--1485263	16	2.4	16	83	16	51	72	0	5	21	1.04
1490511--1490587	24	3.3	23	75	1	64	48	18	7	25	1.75
1491791--1491818	12	2.3	12	100	0	56	67	7	17	7	1.37
1494933--1494968	18	2.0	18	94	0	63	41	0	0	58	0.98
1499245--1499329	9	9.4	9	82	5	109	23	10	24	41	1.86
1501429--1501512	35	2.4	35	91	0	132	32	20	23	23	1.98
1501734--1501803	31	2.3	31	79	18	92	62	7	0	30	1.21
1501734--1501815	31	2.7	29	75	17	85	64	7	0	28	1.20
1502412--1502463	18	2.7	19	77	14	54	34	19	5	40	1.75
1512104--1512147	21	2.1	21	87	8	63	36	0	2	61	1.09
1512381--1512473	45	2.1	44	92	6	152	36	25	4	33	1.76
1512455--1512494	16	2.5	16	91	0	71	27	25	7	40	1.82
1518104--1518157	18	3.0	18	77	0	63	42	3	16	37	1.66
1518486--1519129	344	1.9	344	94	0	1144	31	21	23	22	1.98
1524215--1524449	120	2.0	120	95	0	425	23	18	26	31	1.97
1532924--1533108	50	3.6	50	84	4	208	25	21	29	23	1.99
1533318--1533356	20	2.0	20	90	10	62	56	5	23	15	1.59
1544988--1545144	43	3.7	41	77	7	154	26	19	24	29	1.98
1549961--1550007	24	2.0	24	84	16	62	51	17	0	31	1.46
1555663--1555701	21	1.9	21	85	15	55	56	0	0	43	0.99
1566172--1566197	12	2.2	12	100	0	52	30	38	23	7	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569201--1569267	28	2.4	28	92	7	109	28	19	31	20	1.97
1574883--1575037	81	1.9	80	90	1	247	26	27	10	35	1.90
1576633--1576686	25	2.2	25	93	6	92	48	16	3	31	1.64
1579566--1579608	20	2.2	20	91	0	68	39	18	2	39	1.64
1579566--1579608	5	8.6	5	78	0	50	39	18	2	39	1.64
1579826--1579864	20	1.9	21	84	5	53	46	20	5	28	1.72
1589376--1589490	57	2.0	57	87	0	167	21	4	25	48	1.68
1599775--1599868	47	2.0	47	97	0	179	22	4	47	25	1.69
1599781--1599867	24	3.7	24	77	10	99	20	3	49	26	1.65
1600383--1600445	18	3.4	18	77	4	63	44	4	15	34	1.68
1601151--1601613	232	2.0	235	80	6	530	36	10	7	45	1.67
1601919--1602034	7	16.6	7	77	3	99	30	24	1	43	1.64
1610841--1610878	14	2.8	14	88	4	51	36	0	0	63	0.95
1619493--1619567	23	3.3	23	84	0	105	24	21	24	30	1.99
1622154--1622229	23	3.3	23	86	0	107	23	21	25	30	1.99
1624556--1624611	29	1.9	29	92	0	94	19	8	26	44	1.80
1630942--1631092	27	5.3	27	72	14	106	41	18	15	24	1.90
1630983--1631051	36	1.9	36	81	0	84	39	24	13	23	1.90
1631084--1631255	27	6.5	27	79	8	183	31	19	25	23	1.98
1631084--1631255	53	3.2	52	81	5	193	31	19	25	23	1.98
1631300--1631357	24	2.4	24	85	5	73	22	6	22	48	1.74
1631526--1631604	32	2.5	32	85	6	99	21	20	17	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631595--1631659	22	3.0	22	76	0	76	16	21	16	44	1.86
1632330--1632371	18	2.4	18	88	4	59	40	4	14	40	1.67
1637566--1637685	62	1.9	62	89	3	188	20	30	25	24	1.99
1638163--1638481	173	1.8	173	86	2	462	24	31	24	20	1.98
1645289--1645447	61	2.6	61	81	7	171	19	32	23	23	1.97
1648541--1648584	13	3.4	13	78	12	54	29	22	0	47	1.51
1658466--1658494	12	2.3	13	94	5	51	65	6	6	20	1.40
1663260--1663427	82	2.0	82	100	0	336	33	26	10	29	1.90
1664512--1664835	41	7.9	41	82	4	341	21	19	29	29	1.97
1664529--1664874	41	8.4	41	78	7	276	22	19	28	29	1.98
1665876--1665991	35	3.3	35	76	3	99	24	0	32	43	1.55
1665909--1665965	7	8.1	7	84	0	51	21	0	45	33	1.52
1665901--1665958	21	2.8	21	84	7	73	24	0	41	34	1.55
1665981--1666034	7	7.6	7	81	8	56	20	0	40	38	1.53
1670850--1671145	43	6.9	43	90	1	405	25	18	31	23	1.98
1670829--1671166	129	2.6	129	84	2	455	25	18	30	25	1.98
1670815--1671156	43	8.0	42	86	6	370	24	18	31	25	1.98
1671386--1671424	5	7.8	5	100	0	78	58	0	0	41	0.98
1671508--1671581	30	2.4	31	82	10	82	39	1	9	50	1.44
1671764--1671816	21	2.5	21	96	0	97	37	37	1	22	1.65
1672182--1672211	4	7.8	4	92	7	53	23	0	0	76	0.78
1672344--1672378	8	4.4	8	85	0	52	2	14	0	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1677076--1677131	23	2.4	23	84	0	67	82	1	7	8	0.92
1677083--1677109	7	3.9	7	100	0	54	88	0	0	11	0.50
1677042--1677176	70	1.9	72	82	14	174	73	5	11	10	1.24
1677958--1678011	7	8.0	7	83	8	76	68	0	14	16	1.21
1677959--1678011	13	4.0	13	82	2	70	67	0	15	16	1.23
1677959--1678011	20	2.7	20	87	0	88	67	0	15	16	1.23
1679215--1679948	86	8.5	86	90	1	1053	30	22	23	23	1.99
1679960--1681358	201	7.0	202	86	4	1700	31	23	20	24	1.98
1680020--1681374	50	27.2	50	72	9	814	31	23	20	24	1.98
1679960--1681358	100	14.0	100	88	2	1665	31	23	20	24	1.98
1681390--1681619	44	5.4	43	74	13	163	29	22	21	26	1.99
1681391--1681632	129	1.9	129	88	1	351	30	21	21	26	1.98
1681850--1681901	21	2.5	21	96	3	97	38	38	0	23	1.55
1682428--1682462	8	4.4	8	85	0	52	2	14	0	82	0.77
1682692--1682766	38	2.0	38	97	2	143	49	0	16	34	1.46
1685998--1686030	3	11.0	3	100	0	66	33	0	0	66	0.92
1686659--1686696	16	2.5	15	91	8	60	0	13	0	86	0.56
1687057--1687177	31	3.8	31	80	4	143	57	2	4	35	1.31
1688008--1688061	16	3.4	16	81	0	72	40	1	29	27	1.67
1688043--1688136	44	2.1	45	90	5	147	30	4	29	35	1.77
1688417--1688570	18	8.9	18	65	18	67	53	2	0	42	1.19
1688267--1688873	120	5.1	120	93	2	1033	51	4	1	43	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688654--1688692	18	2.3	17	86	8	53	58	0	5	35	1.20
1688774--1688808	17	2.1	17	100	0	70	65	0	0	34	0.93
1688849--1688896	15	3.1	15	85	11	69	54	6	0	39	1.26
1691001--1691042	19	2.3	19	83	4	50	71	7	11	9	1.31
1691556--1691608	23	2.3	23	81	15	65	56	0	1	41	1.10
1693985--1694289	152	2.0	152	100	0	610	39	17	11	32	1.85
1703970--1704033	27	2.4	27	85	10	80	17	15	4	62	1.49
1707549--1707588	8	5.4	8	80	14	50	75	0	25	0	0.81
1708796--1709034	43	5.7	42	71	12	170	23	21	25	28	1.99
1708782--1709147	126	2.9	126	91	0	552	26	20	23	29	1.98
1708876--1709076	43	4.7	43	73	11	155	26	20	24	28	1.99
1710759--1710792	2	17.0	2	87	0	50	50	5	0	44	1.26
1712717--1712759	3	14.3	3	100	0	86	32	0	0	67	0.91
1712912--1712976	27	2.4	26	87	5	85	32	0	4	63	1.15
1712960--1713006	23	2.0	24	87	4	69	42	2	2	53	1.25
1713695--1713761	34	1.9	35	87	3	100	44	10	10	34	1.73
1714053--1714089	11	3.5	11	82	10	51	64	2	0	32	1.07
1717215--1717245	2	15.5	2	100	0	62	48	0	0	51	1.00
1725934--1726092	43	3.7	42	77	10	144	30	28	18	22	1.97
1725996--1726098	44	2.4	45	85	6	133	32	27	16	24	1.96
1727176--1727200	13	1.9	13	100	0	50	40	24	4	32	1.73
1727405--1727489	42	2.0	42	97	0	161	27	11	31	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1732325--1732421	28	3.5	28	82	0	122	32	24	11	30	1.91
1746260--1746326	21	3.2	21	68	16	57	20	34	22	22	1.97
1751270--1751302	16	2.2	16	89	10	52	51	9	0	39	1.34
1752121--1752183	21	2.9	21	78	17	65	53	0	4	41	1.22
1753860--1753905	23	2.0	23	86	0	65	28	4	21	45	1.71
1755983--1756112	22	5.9	22	89	0	188	27	26	14	31	1.95
1756258--1756297	14	2.5	17	73	23	50	20	55	12	12	1.69
1757824--1757850	8	3.4	8	100	0	54	33	14	25	25	1.95
1758589--1759103	120	4.3	120	96	1	944	44	2	4	47	1.37
1758693--1758729	15	2.4	16	82	17	51	54	0	0	45	1.00

Tables:   1   2   3   4   5   6   7