genome.fa.s132.2.7.7.80.10.50.1000.10.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

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

This is table  10  of  15  ( 1722 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)
1594505--1594550	21	2.1	22	84	4	58	34	19	26	19	1.96
1596424--1596525	27	3.9	27	83	3	120	23	6	24	45	1.77
1604018--1604045	12	2.3	12	100	0	56	32	35	17	14	1.90
1605286--1605315	2	15.0	2	92	0	51	46	0	3	50	1.18
1605419--1605458	2	20.0	2	100	0	80	50	0	0	50	1.00
1605556--1605610	19	3.1	18	75	10	51	52	0	3	43	1.18
1605872--1605927	17	3.4	17	76	18	73	44	0	3	51	1.18
1605879--1605948	32	2.2	32	84	0	86	45	4	4	45	1.42
1607416--1607444	6	5.0	6	95	4	51	0	0	86	13	0.58
1609577--1609611	17	2.1	17	89	5	54	42	0	0	57	0.99
1610431--1610470	21	2.0	20	85	5	53	60	5	0	35	1.19
1611094--1611134	16	2.5	16	84	4	55	26	2	4	65	1.25
1612521--1612563	16	2.6	16	82	14	52	48	0	2	48	1.14
1613056--1613130	33	2.3	33	95	2	134	53	0	0	46	1.00
1613304--1613376	26	2.7	27	74	20	64	57	2	1	38	1.22
1613469--1613583	35	3.3	33	84	8	133	37	8	28	25	1.86
1613469--1613606	35	4.0	33	80	10	127	36	8	30	23	1.85
1614170--1614260	46	2.0	47	89	6	141	39	9	8	41	1.69
1614926--1614953	6	4.7	6	100	0	56	17	32	17	32	1.94
1624138--1624264	62	2.0	62	96	0	236	35	19	19	25	1.95
1626179--1626258	32	2.5	32	77	4	90	41	3	5	50	1.42
1626572--1626623	25	2.1	25	82	13	63	51	1	0	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631865--1631898	13	2.5	14	85	4	52	50	0	11	38	1.39
1631924--1631958	17	2.1	16	89	5	52	42	5	0	51	1.25
1632686--1632712	2	13.5	2	100	0	54	51	0	0	48	1.00
1633524--1633658	34	4.0	34	90	1	191	29	0	29	40	1.57
1638398--1638527	34	3.8	34	88	2	181	29	0	29	40	1.62
1641363--1641447	42	2.0	42	95	0	152	40	30	4	24	1.76
1642858--1642886	14	2.1	14	100	0	58	20	31	20	27	1.98
1643670--1643759	41	2.2	41	81	2	108	32	20	10	37	1.85
1644007--1644048	21	2.0	21	90	9	68	57	0	0	42	0.99
1645225--1645272	25	1.9	25	91	8	80	56	0	0	43	0.99
1645225--1645310	14	6.2	14	69	27	51	53	1	0	45	1.07
1645244--1645303	29	2.0	32	87	9	90	51	1	0	46	1.10
1645298--1645336	18	2.2	18	95	0	69	64	2	0	33	1.08
1646299--1646339	21	1.9	21	90	5	64	24	2	4	68	1.22
1647711--1647752	21	2.0	21	90	9	68	42	0	0	57	0.99
1647943--1648078	56	2.4	58	88	6	204	54	8	17	19	1.68
1649021--1649049	14	2.1	14	100	0	58	27	20	31	20	1.98
1653510--1653534	2	12.5	2	100	0	50	48	0	0	52	1.00
1654403--1654619	34	6.4	34	83	4	242	40	24	6	27	1.81
1654403--1654619	102	2.1	101	87	2	301	40	24	6	27	1.81
1658680--1658721	19	2.2	19	91	0	66	38	16	16	28	1.91
1658688--1658742	19	2.9	19	80	0	56	38	16	12	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1659039--1659255	34	6.4	34	81	4	251	40	26	7	25	1.83
1659037--1659255	68	3.2	66	83	3	285	40	26	7	25	1.83
1659037--1659255	102	2.2	101	88	0	339	40	26	7	25	1.83
1660407--1660498	38	2.4	39	82	12	111	52	1	0	46	1.07
1670977--1671007	2	15.5	2	100	0	62	48	0	0	51	1.00
1671426--1671462	19	1.9	19	94	0	65	37	35	13	13	1.84
1675878--1675929	24	2.2	24	82	3	61	48	23	3	25	1.68
1675916--1675977	28	2.2	27	83	8	79	56	16	4	22	1.59
1676141--1676174	17	1.9	18	88	5	52	14	5	0	79	0.91
1676747--1676788	21	2.0	21	100	0	84	23	9	4	61	1.45
1678036--1678113	35	2.2	37	84	6	99	44	11	8	34	1.72
1678921--1678960	19	2.1	19	85	0	53	72	2	0	25	0.97
1679557--1679598	21	2.0	21	86	9	59	40	0	2	57	1.12
1679844--1679953	41	2.7	41	79	0	121	41	12	15	30	1.84
1680602--1680633	16	1.9	16	93	6	55	53	0	0	46	1.00
1681529--1681564	2	18.0	2	100	0	72	50	0	0	50	1.00
1682729--1682791	14	4.2	16	74	11	53	38	1	0	60	1.07
1682730--1682766	14	2.6	14	86	0	56	37	0	0	62	0.96
1682766--1682817	22	2.3	22	81	12	61	38	1	1	57	1.21
1682991--1683042	18	2.8	19	75	18	56	30	0	3	65	1.10
1683365--1683401	15	2.4	16	90	4	58	43	2	2	51	1.30
1685221--1685272	24	2.2	23	83	10	61	63	0	3	32	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685222--1685285	5	12.6	5	71	15	51	60	0	4	34	1.17
1685228--1685301	21	3.7	21	78	16	77	60	0	2	36	1.11
1685228--1685292	11	6.3	11	77	8	57	61	0	3	35	1.12
1685819--1685862	11	3.9	11	77	16	54	63	0	0	36	0.95
1685891--1685955	16	4.1	16	77	18	57	53	0	0	46	1.00
1685847--1685986	47	2.8	47	76	11	122	52	1	0	45	1.14
1687404--1687445	21	2.0	21	90	9	68	40	0	0	59	0.97
1687671--1687809	41	3.3	41	77	6	145	45	10	17	26	1.81
1688308--1688374	22	3.0	22	76	12	64	62	1	0	35	1.04
1689405--1689461	19	3.1	19	71	2	53	43	10	8	36	1.70
1689534--1689584	21	2.4	21	80	0	57	60	7	1	29	1.36
1691139--1691198	29	2.1	29	100	0	120	43	10	10	36	1.72
1691367--1691405	16	2.4	16	95	0	69	43	5	2	48	1.38
1691435--1691469	16	2.2	16	89	0	52	51	0	0	48	1.00
1691734--1691763	8	3.9	8	95	4	53	0	0	6	93	0.35
1691733--1691765	14	2.4	14	85	14	50	0	0	6	93	0.33
1691734--1691763	15	1.9	15	93	6	51	0	0	6	93	0.35
1691733--1691766	17	2.0	17	94	0	59	0	0	8	91	0.43
1693274--1693322	15	3.2	16	80	8	50	69	0	0	30	0.89
1693287--1693335	23	2.2	22	85	3	62	69	2	0	28	1.00
1695657--1695710	21	2.7	21	81	13	60	46	0	0	53	1.00
1695769--1695807	11	3.6	11	96	3	71	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1695769--1695801	6	5.8	6	86	13	52	54	0	0	45	0.99
1696036--1696090	8	6.9	8	74	0	56	63	0	0	36	0.95
1696027--1696074	16	3.0	16	81	0	60	64	0	0	35	0.94
1696036--1696090	24	2.3	24	100	0	110	63	0	0	36	0.95
1696065--1696095	16	1.9	16	100	0	62	58	0	0	41	0.98
1696905--1696949	16	2.8	17	86	10	67	57	0	0	42	0.98
1696932--1696977	19	2.4	19	82	10	58	60	0	0	39	0.97
1697002--1697046	23	2.0	23	86	0	63	51	11	8	28	1.68
1700248--1700340	11	9.0	10	72	12	55	63	1	0	35	1.02
1701105--1701133	2	14.5	2	100	0	58	51	0	0	48	1.00
1703432--1703470	15	2.5	15	87	4	51	25	2	2	69	1.14
1704491--1704538	15	3.3	15	80	11	64	60	0	0	39	0.97
1705708--1705750	17	2.5	18	81	7	54	39	0	2	58	1.11
1707887--1707916	2	15.0	2	100	0	60	0	50	0	50	1.00
1708758--1708792	12	3.0	12	87	8	54	11	2	0	85	0.69
1708908--1708957	21	2.4	21	86	0	64	32	6	22	40	1.78
1709984--1710028	5	8.6	5	87	7	63	80	0	20	0	0.72
1709984--1710028	15	2.9	16	90	6	74	80	0	20	0	0.72
1710754--1710783	2	15.0	2	92	0	51	53	0	0	46	1.00
1711257--1711298	10	3.9	11	84	15	52	0	0	14	85	0.59
1711257--1711296	6	7.2	6	91	2	50	0	0	12	87	0.54
1714118--1714165	12	4.2	11	75	19	53	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1714118--1714165	11	4.1	12	76	12	55	25	0	0	75	0.81
1714270--1714306	6	5.8	6	93	6	56	16	0	0	83	0.64
1714273--1714303	7	4.6	7	96	4	55	12	0	0	87	0.55
1714269--1714314	13	3.5	13	82	14	58	21	0	0	78	0.76
1714718--1714766	22	2.3	20	76	10	53	36	0	0	63	0.95
1715845--1715869	1	25.0	1	100	0	50	100	0	0	0	0.00
1716772--1716935	78	2.1	79	95	1	303	50	2	1	45	1.25
1717548--1717615	18	3.6	19	76	6	66	47	0	0	52	1.00
1717539--1717594	29	1.9	29	82	7	69	44	1	1	51	1.22
1717574--1717640	18	3.5	18	78	12	55	46	0	0	53	1.00

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