genome.fa.s164.2.7.7.80.10.50.1000.11.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: Scaffold164
Parameters: 2 7 7 80 10 50 1000
Length:  2248410

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

This is table  11  of  15  ( 1726 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)
1589635--1589666	14	2.3	14	94	0	55	31	6	12	50	1.65
1590225--1590264	21	1.9	21	90	10	64	60	0	0	40	0.97
1594210--1595221	507	2.0	507	94	1	1787	37	15	8	38	1.79
1597878--1598202	141	2.3	141	87	2	465	44	9	10	34	1.72
1597894--1598203	140	2.2	140	88	2	419	45	9	10	35	1.69
1599077--1599112	13	2.8	13	86	0	54	5	16	0	77	0.94
1599078--1599110	16	2.2	15	89	10	50	3	15	0	81	0.80
1600366--1600407	15	2.6	16	81	11	50	40	11	11	35	1.79
1601135--1601228	45	2.1	45	87	0	134	44	14	17	23	1.85
1601135--1601256	45	2.7	45	83	0	127	41	17	18	22	1.90
1601335--1601921	47	12.8	47	68	14	221	41	16	21	21	1.90
1601469--1601617	45	3.3	45	70	7	122	40	18	19	22	1.92
1601410--1601940	91	5.8	91	77	4	431	40	16	20	21	1.91
1601410--1601827	181	2.3	183	78	4	450	41	15	20	22	1.89
1601743--1601963	47	4.8	47	75	5	173	39	17	22	20	1.92
1612323--1612886	52	10.9	52	74	6	306	37	14	22	26	1.92
1612371--1612853	156	3.1	155	80	4	472	37	13	22	26	1.91
1612400--1612779	104	3.7	103	80	4	372	36	13	22	27	1.92
1612922--1613164	32	7.4	32	72	12	136	27	13	24	34	1.93
1612935--1613117	67	2.8	65	83	2	213	27	14	22	34	1.94
1612926--1613157	99	2.4	97	81	7	254	27	13	23	35	1.93
1613161--1613438	59	4.7	60	74	11	209	34	12	27	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1613267--1613538	29	9.4	30	74	13	169	32	13	27	26	1.94
1613168--1613538	30	12.7	28	74	10	194	32	13	27	26	1.94
1613149--1613737	30	19.8	30	73	10	137	31	12	29	25	1.93
1613559--1613695	60	2.3	59	81	9	161	29	13	32	25	1.93
1613582--1613737	60	2.5	60	82	11	167	28	14	32	25	1.94
1613691--1613816	64	2.0	65	83	1	164	38	11	24	24	1.89
1613717--1613823	32	3.4	32	75	5	101	42	12	20	24	1.86
1623550--1623597	21	2.4	22	80	16	59	22	22	10	43	1.84
1625945--1626043	52	1.9	52	85	4	137	44	14	13	28	1.82
1629061--1629321	132	2.0	132	93	0	441	39	16	6	37	1.76
1629704--1629743	20	2.0	20	86	13	57	35	0	0	65	0.93
1631476--1631506	2	15.5	2	100	0	62	51	0	0	48	1.00
1635465--1635723	129	2.0	129	95	0	464	26	24	6	42	1.79
1636450--1636503	20	2.7	20	94	0	90	29	16	9	44	1.79
1637411--1637451	21	2.0	22	85	9	59	21	19	9	48	1.77
1641176--1641222	23	2.0	24	84	12	62	61	17	4	17	1.49
1641877--1641928	21	2.4	22	81	12	63	17	23	1	57	1.49
1643528--1643595	36	1.9	36	84	3	93	25	26	14	33	1.94
1644079--1644148	24	2.9	24	95	0	122	44	11	22	21	1.84
1644079--1644143	14	5.2	14	66	27	56	43	10	23	23	1.85
1647803--1647855	20	2.7	19	82	5	70	37	11	15	35	1.83
1648194--1648247	23	2.3	25	84	9	69	27	5	11	55	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1651975--1652008	16	2.1	16	88	0	50	32	11	2	52	1.53
1653283--1653535	79	3.3	77	82	5	278	36	13	21	27	1.92
1653471--1653568	51	1.9	51	91	4	162	40	8	19	31	1.81
1653390--1653666	130	2.1	130	85	2	378	36	11	22	29	1.90
1653471--1653585	51	2.3	51	87	3	160	39	9	20	30	1.85
1653306--1653741	209	2.1	207	86	3	592	37	11	22	29	1.89
1653523--1653750	79	2.9	78	83	3	289	35	11	22	30	1.90
1653520--1653781	79	3.3	77	80	5	285	36	12	22	28	1.90
1660201--1660274	21	3.6	20	82	10	71	29	20	13	36	1.91
1663939--1664006	16	4.2	16	84	0	91	13	16	27	42	1.85
1663934--1664016	32	2.6	32	88	5	114	14	13	28	43	1.83
1663993--1664112	53	2.2	55	83	5	156	23	13	25	38	1.91
1664830--1664862	16	2.1	16	94	0	57	15	18	27	39	1.90
1666091--1666124	17	1.9	18	94	5	61	52	0	2	44	1.16
1673166--1673233	29	2.4	29	80	9	77	50	1	0	48	1.10
1673183--1673301	12	9.7	12	66	26	54	52	2	1	43	1.24
1673504--1673573	5	13.2	5	79	11	68	25	0	1	72	0.92
1673504--1673544	11	3.8	11	96	3	75	19	0	0	80	0.71
1673504--1673573	16	4.4	16	76	5	70	25	0	1	72	0.92
1673494--1673572	27	3.2	25	75	23	85	30	0	1	68	0.98
1673504--1673573	11	6.6	10	82	8	68	25	0	1	72	0.92
1674962--1675002	19	2.1	19	86	9	55	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1675601--1675630	15	1.9	16	93	6	53	0	6	3	90	0.56
1677001--1677049	14	3.4	14	80	11	55	61	0	0	38	0.96
1677005--1677071	25	2.6	27	73	24	79	61	1	0	37	1.05
1678839--1678868	2	15.0	2	100	0	60	50	50	0	0	1.00
1678868--1678901	2	17.0	2	100	0	68	50	0	0	50	1.00
1684038--1684074	2	18.5	2	100	0	74	48	0	0	51	1.00
1684727--1685161	112	3.9	111	82	7	485	40	8	7	44	1.62
1684728--1685131	220	1.8	217	84	6	546	41	7	6	44	1.59
1689586--1689632	15	3.1	15	77	17	53	40	0	6	53	1.27
1689594--1689641	13	3.4	14	78	15	55	50	0	4	45	1.21
1694490--1694519	15	2.0	15	93	0	51	23	13	3	60	1.48
1697507--1697685	78	2.3	78	92	1	297	26	12	16	43	1.84
1699335--1699417	13	7.2	13	75	25	96	36	18	12	33	1.87
1699335--1699417	34	2.4	34	100	0	166	36	18	12	33	1.87
1699468--1699521	19	2.8	20	91	2	83	37	12	12	37	1.83
1699507--1699533	13	2.1	13	100	0	54	40	14	14	29	1.86
1699488--1699552	32	2.0	33	87	3	96	41	13	13	30	1.84
1702018--1702056	13	3.0	14	85	14	57	38	12	12	35	1.82
1702206--1702275	29	2.2	33	82	12	85	54	21	1	22	1.53
1708315--1708368	20	2.8	20	91	2	83	37	18	12	31	1.89
1715824--1715860	2	18.5	2	100	0	74	48	0	51	0	1.00
1717458--1717485	12	2.3	12	100	0	56	17	14	14	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722258--1722331	28	2.7	28	72	15	73	58	0	1	40	1.07
1726327--1726356	13	2.3	13	94	0	51	40	13	13	33	1.83
1726306--1726370	33	2.0	33	87	6	96	35	18	12	33	1.88
1726401--1726455	19	2.8	20	86	5	85	38	14	16	30	1.89
1726422--1726540	54	2.2	52	94	2	202	42	14	15	28	1.86
1726495--1726521	13	2.1	13	100	0	54	40	14	14	29	1.86
1735045--1735169	52	2.4	52	95	0	223	28	17	18	36	1.94
1735045--1735189	52	2.8	52	87	4	195	28	17	19	34	1.94
1735178--1735202	13	1.9	13	100	0	50	36	16	16	32	1.90
1735266--1735290	13	1.9	13	100	0	50	32	16	16	36	1.90
1735244--1735310	33	2.0	33	88	0	98	40	13	11	34	1.81
1737209--1737238	13	2.3	13	94	0	51	40	13	13	33	1.83
1737188--1737254	33	2.0	33	88	5	100	35	19	11	32	1.88
1737287--1737338	19	2.7	19	81	3	68	36	13	17	32	1.89
1737323--1737347	13	1.9	13	100	0	50	36	16	16	32	1.90
1738539--1738593	20	2.8	20	74	0	56	41	5	18	34	1.73
1738680--1738753	21	3.6	20	76	7	60	33	17	10	37	1.85
1739027--1739262	119	2.0	119	94	0	409	36	17	11	34	1.86
1743523--1743593	20	3.4	20	71	16	63	30	14	12	42	1.82
1748740--1748770	16	1.9	16	93	0	53	35	3	0	61	1.12
1749242--1749318	39	2.0	39	89	0	118	35	16	14	33	1.89
1749569--1749999	164	2.6	162	82	7	519	44	13	9	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749466--1750029	165	3.4	163	79	7	570	44	12	10	31	1.77
1750951--1750992	23	1.9	22	85	9	59	9	7	9	73	1.24
1751474--1751823	150	2.3	149	79	7	354	51	7	5	35	1.53
1753881--1753955	20	3.8	20	80	0	96	33	13	12	41	1.81
1753881--1753958	40	2.0	39	89	2	120	33	12	12	41	1.82
1754867--1754906	20	2.0	21	90	5	64	22	10	10	57	1.61
1767884--1767923	17	2.4	17	95	0	71	50	10	32	7	1.64
1767935--1767973	19	2.0	20	90	5	62	84	12	2	0	0.72
1769137--1770020	28	31.0	28	86	4	1159	28	30	17	23	1.97
1769136--1770020	85	10.3	86	87	5	1167	28	30	17	23	1.97

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