genome.fa.s48.2.7.7.80.10.50.1000.11.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  11  of  27  ( 3212 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)
1537410--1537436	13	2.1	13	100	0	54	55	0	0	44	0.99
1539611--1539642	2	16.0	2	93	0	55	46	0	0	53	1.00
1543049--1543105	16	3.4	17	81	9	64	28	0	0	71	0.86
1543053--1543092	18	2.2	18	86	8	55	22	0	0	77	0.77
1543177--1543257	42	2.0	42	85	2	110	37	16	16	30	1.90
1543663--1543701	18	2.2	18	86	9	53	48	0	2	48	1.15
1543678--1543749	30	2.4	30	77	9	83	50	2	4	43	1.36
1543789--1543833	18	2.5	19	82	17	60	73	0	2	24	0.95
1545542--1545569	2	14.0	2	100	0	56	50	0	0	50	1.00
1547747--1547781	17	2.0	18	88	5	54	42	2	0	54	1.15
1548347--1548396	3	16.7	3	100	0	100	68	0	0	32	0.90
1549005--1549037	17	1.9	17	88	11	50	42	12	3	42	1.57
1561768--1561838	35	2.0	35	100	0	142	35	14	19	30	1.91
1564964--1565003	20	2.0	20	85	9	55	42	5	0	52	1.23
1565133--1565182	20	2.5	20	75	15	57	44	6	0	50	1.26
1565388--1565471	44	1.9	43	86	11	118	50	7	1	41	1.37
1565545--1565591	18	2.8	17	78	18	62	42	0	0	57	0.98
1567656--1567697	2	21.0	2	90	0	66	47	47	4	0	1.23
1571568--1571631	18	3.4	18	79	12	58	50	0	0	50	1.00
1571582--1571634	19	2.8	20	82	8	74	49	0	0	50	1.00
1571596--1571660	21	3.1	21	75	4	60	53	0	0	46	1.00
1571617--1571686	30	2.3	30	75	9	70	51	0	1	47	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572247--1572293	25	1.9	24	86	4	67	61	0	0	38	0.96
1578570--1578641	34	2.1	34	100	0	144	22	18	11	48	1.79
1581431--1581512	40	2.0	40	83	9	103	52	0	0	47	1.00
1581808--1581864	19	3.2	19	75	24	61	54	0	0	45	0.99
1581911--1581943	15	2.2	15	94	0	57	42	30	6	21	1.77
1589452--1589476	5	5.0	5	100	0	50	80	0	20	0	0.72
1590252--1590287	16	2.1	18	90	10	58	44	0	11	44	1.39
1590372--1590411	21	1.9	21	90	10	64	37	2	0	60	1.11
1592556--1592582	12	2.2	12	100	0	54	48	0	0	51	1.00
1593672--1593711	19	2.1	19	85	4	53	42	0	2	55	1.13
1599773--1599816	17	2.5	18	82	14	56	56	0	0	43	0.99
1619849--1619890	18	2.3	19	91	4	68	50	0	0	50	1.00
1620788--1620827	21	2.0	19	85	9	53	45	5	20	30	1.72
1624165--1624201	14	2.4	16	86	8	51	64	2	0	32	1.07
1624672--1624721	19	2.8	19	85	8	61	60	0	0	40	0.97
1625992--1626063	32	2.2	33	82	7	85	56	1	0	41	1.07
1625975--1626118	58	2.5	56	76	15	143	59	1	0	38	1.11
1626046--1626112	6	11.8	6	71	17	54	64	0	0	35	0.94
1626038--1626107	15	4.7	15	72	15	56	62	0	0	37	0.95
1626066--1626117	19	2.9	19	86	13	76	67	0	0	32	0.91
1627061--1627115	20	2.6	22	77	16	62	56	0	0	43	0.99
1627390--1627528	11	13.0	11	66	21	57	40	0	1	58	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627419--1627501	24	3.5	24	73	15	64	44	0	2	53	1.13
1627488--1627526	19	2.2	17	86	9	51	33	0	0	66	0.92
1629175--1629205	2	16.0	2	93	6	55	48	0	0	51	1.00
1629267--1629307	18	2.2	19	87	12	59	41	0	0	58	0.98
1629259--1629317	24	2.4	23	76	15	57	40	0	0	59	0.97
1632735--1632776	12	3.2	13	80	10	50	50	4	2	42	1.36
1632895--1632949	16	3.7	15	83	11	60	69	1	0	29	0.99
1634544--1634581	18	2.1	18	90	0	58	84	0	2	13	0.73
1634730--1634888	50	3.2	50	93	0	273	30	22	18	28	1.98
1638861--1638905	22	2.0	22	95	0	81	20	28	4	46	1.69
1639004--1639047	19	2.3	20	80	11	56	38	18	18	25	1.92
1639303--1639448	50	2.9	50	92	2	249	28	21	19	30	1.98
1642359--1642401	2	21.5	2	95	0	77	46	0	2	51	1.13
1646251--1646321	27	2.6	28	88	2	99	47	22	5	23	1.72
1650801--1650871	27	2.6	27	88	6	99	46	23	7	22	1.76
1651743--1651794	20	2.6	20	81	6	61	38	0	3	57	1.17
1652657--1652712	23	2.4	23	85	14	87	67	0	0	32	0.91
1652659--1652713	24	2.2	24	90	9	85	67	0	0	32	0.91
1652663--1652708	12	3.8	12	85	8	67	69	0	0	30	0.89
1652723--1652775	16	3.2	18	76	15	60	67	0	0	32	0.91
1652730--1652775	18	2.6	17	86	13	58	69	0	0	30	0.89
1653300--1653380	27	2.9	27	89	7	119	29	3	16	50	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654346--1654386	3	13.7	3	100	0	82	68	0	0	31	0.90
1655045--1655075	16	1.9	16	93	0	53	32	0	0	67	0.91
1656687--1656786	5	21.4	5	73	19	74	41	2	1	56	1.18
1656687--1656784	9	11.1	9	74	15	71	40	2	1	56	1.18
1656712--1656791	23	3.4	23	87	6	108	45	2	0	52	1.14
1656687--1656756	14	4.9	14	76	10	70	40	1	1	57	1.17
1656867--1656937	23	3.1	23	83	4	81	59	26	0	14	1.36
1657202--1657239	17	2.2	17	90	4	58	81	0	0	18	0.69
1657407--1657514	27	4.0	27	85	3	146	48	17	8	25	1.75
1659292--1659333	21	2.0	22	85	4	59	19	26	21	33	1.97
1668359--1668399	15	2.7	15	80	0	55	48	4	2	43	1.37
1668804--1668872	21	3.1	21	78	14	68	42	0	0	57	0.98
1668931--1669148	34	6.4	34	83	2	242	25	7	25	42	1.80
1668931--1669148	102	2.1	101	86	1	301	25	7	25	42	1.80
1670301--1670386	33	2.7	32	83	7	111	68	2	1	27	1.09
1670777--1670825	22	2.3	21	83	13	64	57	2	2	38	1.22
1676310--1676411	34	3.0	34	98	0	195	19	0	39	41	1.52
1676303--1676433	22	5.9	22	72	22	103	20	0	38	40	1.53
1676351--1676462	56	2.0	56	96	0	206	21	0	39	39	1.54
1677791--1678050	50	5.2	50	93	1	441	28	21	19	30	1.98
1677791--1678050	101	2.6	100	96	2	477	28	21	19	30	1.98
1682444--1682703	50	5.2	50	93	1	441	28	21	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682444--1682703	101	2.6	100	96	2	477	28	21	19	30	1.98
1683067--1683100	16	2.1	16	89	10	52	52	11	5	29	1.61
1684740--1684777	16	2.2	18	86	9	53	76	5	5	13	1.13
1684965--1685183	34	6.5	34	87	2	280	41	25	7	26	1.81
1684960--1685183	102	2.2	101	86	2	315	41	24	7	26	1.80
1689239--1689290	19	2.7	19	84	0	68	34	19	17	28	1.94
1689597--1689813	34	6.4	34	84	4	269	40	26	7	25	1.82
1689591--1689813	68	3.3	67	86	2	311	41	26	7	25	1.81
1689591--1689813	102	2.2	102	88	1	342	41	26	7	25	1.81
1692142--1692179	3	12.7	3	94	0	67	65	2	0	31	1.06
1693236--1693274	20	2.0	20	84	0	51	46	10	7	35	1.67
1698804--1698850	22	2.2	21	85	11	60	44	2	4	48	1.34
1699026--1699070	21	2.1	21	84	8	56	57	0	0	42	0.98
1700348--1700401	19	2.8	19	77	0	63	46	0	0	53	1.00
1701240--1701280	19	2.0	20	86	9	57	53	9	4	31	1.55
1702682--1702735	25	2.2	25	86	0	72	53	0	3	42	1.18
1702690--1702757	25	2.8	26	86	8	90	54	0	0	45	0.99
1702765--1702803	17	2.3	17	86	0	51	35	0	2	61	1.10
1706545--1708200	661	2.5	660	78	10	1537	45	6	7	40	1.58
1707842--1707897	19	3.0	20	79	7	64	41	0	1	57	1.09
1708122--1708161	18	2.3	17	83	16	55	35	0	0	65	0.93
1708452--1708479	12	2.3	12	100	0	56	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709858--1709894	15	2.4	15	86	4	56	54	2	0	43	1.14
1710360--1710396	13	2.8	14	80	12	51	37	10	0	51	1.37
1711559--1711612	28	2.0	28	89	7	85	3	11	3	81	0.95
1712908--1712963	18	3.3	17	80	14	62	39	0	1	58	1.08
1713504--1713567	28	2.2	30	83	13	89	46	0	3	50	1.17
1713533--1713583	23	2.2	24	86	10	79	45	0	1	52	1.12
1714033--1714071	20	1.9	20	84	5	51	46	2	5	46	1.38
1714745--1714830	43	2.0	43	100	0	172	41	16	30	11	1.83
1718314--1718339	12	2.2	12	100	0	52	15	34	26	23	1.94
1718342--1718392	12	3.9	12	78	16	57	43	5	11	39	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27