genome.fa.s84.2.7.7.80.10.50.1000.11.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: Scaffold84
Parameters: 2 7 7 80 10 50 1000
Length:  2025335

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

This is table  11  of  13  ( 1500 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)
1618873--1618925	20	2.6	21	84	3	72	28	16	15	39	1.89
1618913--1618937	13	1.9	13	100	0	50	36	16	16	32	1.90
1619803--1619871	33	2.1	33	94	0	120	36	20	18	24	1.95
1627571--1627642	20	3.7	18	82	12	81	40	15	16	27	1.89
1627570--1627622	19	2.7	19	88	8	72	41	16	15	26	1.88
1631578--1631661	30	2.9	30	81	11	88	79	3	8	8	1.03
1631621--1631674	1	54.0	1	77	0	54	88	0	11	0	0.50
1631621--1631683	8	7.9	8	91	7	85	85	0	14	0	0.59
1631621--1631682	32	1.9	32	90	3	97	87	0	12	0	0.55
1631628--1631682	18	3.1	18	92	2	85	87	0	12	0	0.55
1632725--1633006	64	4.4	63	77	11	188	34	29	14	22	1.93
1632704--1633026	31	10.2	33	75	9	248	33	29	15	22	1.95
1632690--1633026	128	2.7	126	79	10	332	33	28	15	22	1.94
1633106--1633407	53	5.7	52	74	8	241	27	21	13	37	1.91
1633123--1633371	53	4.7	53	79	5	254	25	22	14	36	1.93
1633108--1633417	52	5.9	52	74	9	211	26	22	13	37	1.91
1636483--1636680	61	3.2	60	74	7	157	40	13	22	22	1.89
1636793--1637011	32	6.9	32	79	4	203	23	16	26	32	1.96
1636808--1637011	31	6.4	32	78	6	173	23	15	27	32	1.95
1636799--1637011	65	3.3	64	81	4	191	23	15	27	32	1.95
1636930--1637070	62	2.2	63	83	5	169	23	14	26	35	1.94
1636968--1637038	31	2.3	31	82	0	88	21	16	25	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637128--1637555	29	14.2	29	75	16	213	34	12	28	24	1.92
1637100--1637555	94	5.0	88	80	11	247	33	13	29	23	1.93
1637153--1638114	62	15.8	60	76	10	644	35	11	28	24	1.91
1637139--1638114	123	8.0	124	74	11	424	35	11	28	24	1.91
1637160--1638114	91	10.5	92	78	9	665	35	11	28	24	1.91
1647307--1647455	52	2.9	51	91	4	244	30	17	19	32	1.95
1647444--1647468	13	1.9	13	100	0	50	36	16	16	32	1.90
1647532--1647556	13	1.9	13	100	0	50	32	16	16	36	1.90
1648364--1648517	43	3.2	49	80	13	187	31	17	27	24	1.97
1648537--1648770	28	8.2	28	83	7	292	21	16	28	33	1.95
1648536--1648773	58	4.2	56	83	6	300	21	15	28	33	1.95
1648543--1648770	88	2.6	86	90	4	386	21	16	28	34	1.95
1650206--1650346	9	15.3	9	75	15	112	1	2	10	85	0.77
1650206--1650315	36	2.9	38	84	10	154	0	1	10	87	0.67
1650206--1650344	46	3.2	45	79	17	143	1	2	10	84	0.78
1650209--1650346	55	2.5	53	82	11	156	1	2	10	84	0.79
1650206--1650315	1	110.0	1	76	0	94	0	1	10	87	0.67
1664182--1664330	52	2.9	51	91	4	244	30	17	19	32	1.95
1664319--1664343	13	1.9	13	100	0	50	36	16	16	32	1.90
1664407--1664431	13	1.9	13	100	0	50	32	16	16	36	1.90
1665030--1665493	166	2.8	161	86	7	596	29	9	7	53	1.61
1665489--1665526	14	2.8	14	88	4	60	34	2	0	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1665490--1665548	27	2.2	27	84	6	75	37	3	3	55	1.33
1665490--1665548	13	4.4	13	75	12	57	37	3	3	55	1.33
1665795--1665819	12	2.1	12	100	0	50	92	0	8	0	0.40
1665795--1665843	20	2.5	19	81	12	55	81	0	12	6	0.86
1666775--1667044	140	1.9	138	81	5	319	35	10	11	43	1.74
1667244--1667516	150	1.8	149	81	4	343	27	17	18	36	1.93
1670555--1670872	162	2.0	160	84	8	414	28	13	8	50	1.70
1670571--1670979	161	2.5	162	79	8	390	31	12	7	48	1.68
1672711--1672804	40	2.3	40	80	10	102	37	13	18	30	1.90
1672843--1672869	13	2.1	13	100	0	54	40	14	14	29	1.86
1675749--1675787	20	2.0	20	94	0	69	28	20	12	38	1.89
1676239--1676302	32	2.0	32	84	0	83	17	15	26	40	1.89
1676259--1676359	16	6.3	16	79	6	116	17	15	27	38	1.91
1676262--1676356	48	2.0	48	87	4	138	16	15	27	40	1.89
1677957--1678001	16	2.8	16	82	0	54	11	15	24	48	1.77
1687062--1687134	20	3.6	20	81	3	101	35	13	19	31	1.91
1687080--1687155	21	3.7	21	78	3	91	40	11	17	30	1.85
1687062--1687155	41	2.3	41	96	0	170	38	12	18	30	1.88
1687194--1687219	13	2.0	13	100	0	52	38	15	15	30	1.88
1688138--1688179	5	8.4	5	84	10	59	16	4	0	78	0.91
1688986--1689023	15	2.7	14	88	8	51	0	15	2	81	0.80
1689607--1689913	165	1.9	167	83	4	406	46	6	13	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691171--1691259	42	2.1	42	81	10	101	48	13	21	16	1.81
1691077--1691260	85	2.2	85	79	3	201	45	10	23	20	1.82
1691405--1691786	47	8.2	46	75	8	227	38	18	22	20	1.94
1691335--1691535	94	2.2	93	80	8	212	40	15	18	24	1.90
1691404--1691786	93	4.1	93	78	5	373	38	18	22	20	1.94
1691412--1691781	94	4.0	93	78	5	354	38	19	21	20	1.94
1693041--1693074	15	2.1	16	89	10	52	14	5	2	76	1.09
1704170--1704234	33	2.0	33	87	6	96	33	18	13	33	1.90
1704264--1704336	20	3.7	19	87	7	85	39	16	15	28	1.89
1705199--1705264	28	2.4	28	100	0	132	30	12	27	30	1.92
1711268--1711319	19	2.7	20	84	6	70	40	17	13	28	1.87
1715366--1715396	15	2.1	15	93	0	53	48	16	22	12	1.80
1717465--1717503	13	3.0	13	96	0	69	30	17	15	35	1.91
1717626--1717668	20	2.2	19	84	16	52	30	20	4	44	1.72
1720046--1720097	19	2.7	20	84	6	70	40	17	13	28	1.87
1721246--1721282	3	12.3	3	94	0	65	29	35	0	35	1.58
1732320--1732373	19	2.8	20	80	2	65	31	14	12	40	1.84
1732588--1732939	180	2.0	179	99	0	695	37	20	11	30	1.88
1738735--1738760	13	2.0	13	100	0	52	30	15	15	38	1.88
1740912--1740949	20	1.9	20	94	0	67	36	15	15	31	1.90
1742174--1742223	21	2.4	21	89	0	73	32	14	18	36	1.90
1743721--1743753	15	2.2	15	89	10	50	21	9	0	69	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744586--1744610	13	1.9	13	100	0	50	32	16	16	36	1.90
1745259--1745301	19	2.2	19	87	8	59	37	20	4	37	1.74
1748687--1748716	15	2.0	15	100	0	60	20	26	6	46	1.75
1753639--1753694	11	5.1	11	78	10	53	32	3	12	51	1.56
1753644--1753694	6	9.2	6	81	16	65	33	1	13	50	1.53
1753639--1753692	27	2.0	27	100	0	108	33	3	11	51	1.55
1755225--1755352	59	2.2	59	82	10	147	28	14	12	45	1.81
1755277--1755403	59	2.2	59	81	8	145	25	13	11	48	1.76
1755588--1755827	80	3.0	79	76	5	243	27	8	23	40	1.83
1766982--1767036	20	2.7	19	83	13	65	30	18	12	38	1.88
1769184--1769238	19	2.8	20	77	5	67	38	12	18	30	1.88
1769224--1769250	13	2.1	13	100	0	54	40	14	14	29	1.86
1775941--1775983	20	2.1	20	86	4	59	9	30	44	16	1.79
1776258--1776304	21	2.3	20	78	10	51	42	4	19	34	1.70
1776426--1776464	13	3.0	13	96	0	69	35	15	17	30	1.91
1780358--1780409	21	2.5	20	78	9	59	23	9	3	63	1.41
1786273--1786306	3	11.3	3	100	0	68	32	32	0	35	1.58
1787984--1788039	19	2.9	19	86	2	76	39	14	16	30	1.88
1801099--1801226	47	2.7	48	88	2	186	35	17	26	20	1.95
1801339--1802568	64	20.5	56	77	11	495	22	17	29	30	1.97
1801352--1802568	92	13.5	84	77	9	521	22	17	29	30	1.97
1801352--1802391	32	34.4	31	82	7	848	21	18	29	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1801497--1802387	124	7.3	124	84	6	939	21	18	29	31	1.97
1801484--1802437	156	6.2	155	81	8	959	21	18	29	31	1.97
1802414--1802539	28	4.5	28	88	2	182	26	13	33	26	1.93
1802414--1802565	56	2.7	56	84	6	182	27	14	31	26	1.95
1811280--1811609	167	2.0	167	92	0	543	36	13	13	36	1.84
1813126--1813218	35	2.7	35	93	1	152	46	6	27	19	1.74
1813146--1813274	21	6.8	21	69	23	106	43	6	30	20	1.76
1813146--1813274	56	2.3	56	94	1	222	43	6	30	20	1.76
1813137--1813308	91	1.9	90	95	1	308	43	5	31	19	1.75
1813209--1813314	35	3.1	35	95	1	187	41	4	33	19	1.73

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