genome.fa.s42.2.7.7.80.10.50.1000.11.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

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   

This is table  11  of  24  ( 2843 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)
1608274--1608321	17	2.8	18	87	9	73	31	0	0	68	0.90
1609280--1609364	16	5.1	16	72	16	66	45	0	0	54	1.00
1609328--1609378	21	2.4	22	81	15	63	50	0	0	49	1.00
1611082--1611154	20	3.7	19	83	8	85	27	15	19	38	1.91
1611184--1611236	20	2.7	20	87	0	70	39	13	15	32	1.85
1611271--1611308	20	1.9	19	89	5	58	36	10	15	36	1.82
1612820--1612852	3	11.0	3	93	0	57	30	0	36	33	1.58
1617536--1617582	22	2.2	22	85	14	64	31	21	0	46	1.51
1619862--1619919	20	3.0	20	84	2	73	39	12	13	34	1.82
1620046--1620083	20	2.0	20	94	5	69	36	10	15	36	1.82
1625485--1625527	20	2.2	19	84	12	52	20	6	13	58	1.59
1629344--1629368	13	1.9	13	100	0	50	36	16	16	32	1.90
1629324--1629388	33	2.0	33	87	0	94	33	12	13	40	1.82
1629431--1629458	13	2.2	13	100	0	56	28	14	17	39	1.89
1637743--1637892	63	2.4	63	80	4	178	22	35	16	26	1.95
1637836--1637963	35	3.8	35	82	7	142	20	37	14	28	1.91
1637934--1638137	27	7.1	27	78	13	203	22	36	15	26	1.93
1637743--1638203	31	14.8	31	74	14	222	21	34	15	27	1.94
1637898--1638218	62	5.2	61	75	15	295	22	35	14	27	1.93
1637896--1638198	120	2.5	115	83	10	349	21	34	15	28	1.94
1637999--1638166	89	1.9	89	85	4	232	21	36	15	26	1.93
1638105--1638188	35	2.5	33	82	3	105	21	33	11	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638105--1638198	33	2.8	33	80	6	100	20	31	15	31	1.94
1638184--1638304	33	3.7	33	93	4	210	27	34	19	19	1.95
1638309--1638960	49	13.6	49	86	6	894	25	25	17	30	1.97
1638309--1638969	141	4.6	141	89	5	1001	25	25	17	31	1.97
1638870--1639082	52	3.7	55	78	9	180	25	23	14	36	1.93
1639889--1639942	20	2.7	20	88	0	72	31	11	12	44	1.78
1639984--1640011	13	2.2	13	100	0	56	28	14	17	39	1.89
1646661--1646714	19	2.8	19	85	2	72	29	14	18	37	1.91
1646743--1646812	33	2.1	34	86	7	99	34	12	18	34	1.89
1652958--1652984	13	2.1	13	100	0	54	29	14	14	40	1.86
1654835--1654907	22	3.6	20	73	19	71	39	2	32	24	1.70
1655450--1655476	13	2.1	13	100	0	54	29	14	14	40	1.86
1655460--1655516	19	2.9	19	86	2	78	31	15	17	35	1.92
1655561--1655614	13	4.5	13	71	21	55	35	12	18	33	1.89
1655545--1655614	33	2.1	34	89	7	108	32	12	20	34	1.90
1655952--1656042	36	2.7	34	79	14	109	29	24	14	31	1.94
1658846--1658979	51	2.6	51	86	3	180	41	13	15	29	1.85
1659039--1659092	20	2.7	20	85	2	72	33	18	7	40	1.78
1660806--1660978	79	2.2	79	85	6	226	30	17	27	25	1.97
1660831--1661108	130	2.1	131	87	2	389	30	14	26	28	1.95
1660912--1661028	51	2.3	51	90	0	180	28	12	30	28	1.93
1660961--1661559	79	7.6	79	77	4	566	33	12	23	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660964--1661559	154	3.8	154	82	4	606	33	12	23	30	1.91
1660964--1661557	311	1.9	314	82	5	747	33	12	23	30	1.91
1663895--1663950	20	2.8	20	100	0	112	39	10	17	32	1.84
1663915--1664042	51	2.5	51	82	6	163	40	12	17	29	1.86
1664700--1664835	34	3.8	34	73	19	123	38	18	25	18	1.93
1664631--1664878	77	3.3	75	82	9	279	39	15	25	19	1.90
1664816--1664931	43	2.7	42	84	2	151	47	10	21	20	1.80
1664942--1665619	181	3.7	181	82	6	734	29	17	26	26	1.98
1664937--1665624	61	11.4	60	81	6	678	29	17	26	26	1.98
1666544--1666568	13	1.9	13	100	0	50	36	16	16	32	1.90
1666613--1666650	20	1.9	20	100	0	76	26	15	13	44	1.83
1666637--1666661	13	1.9	13	100	0	50	32	16	16	36	1.90
1668832--1668872	21	2.0	21	90	9	66	48	0	19	31	1.49
1672882--1672924	21	2.1	20	82	4	50	25	11	6	55	1.60
1675122--1675153	13	2.5	13	94	0	55	28	12	15	43	1.83
1675102--1675164	33	1.9	33	90	6	101	30	14	14	41	1.85
1676397--1676456	17	3.5	17	79	6	59	3	1	13	81	0.89
1676398--1676453	8	6.9	8	78	11	51	3	1	12	82	0.88
1688820--1688991	79	2.2	79	82	5	204	34	14	23	27	1.94
1689012--1689439	79	5.4	78	80	5	387	35	12	22	30	1.91
1688978--1689441	158	2.9	157	82	6	483	34	12	23	30	1.91
1689296--1689553	130	2.0	130	87	1	374	34	13	24	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1689380--1689490	51	2.2	51	83	0	132	35	10	25	28	1.90
1692978--1693048	24	2.9	24	74	14	65	43	2	1	52	1.24
1695142--1695176	13	2.7	13	95	0	61	34	14	20	31	1.92
1697791--1697842	16	2.9	19	81	16	58	53	21	0	25	1.45
1703835--1703865	13	2.4	13	94	0	53	35	12	16	35	1.87
1703815--1703881	33	2.0	32	86	11	91	34	17	11	35	1.87
1703914--1703965	19	2.6	20	84	9	70	36	17	13	32	1.89
1703951--1704010	13	5.1	13	69	22	60	40	16	16	26	1.90
1703964--1704029	20	3.7	20	73	26	83	39	18	18	24	1.92
1703932--1704029	33	3.0	33	95	1	171	39	17	17	25	1.91
1706772--1706841	10	7.3	10	73	15	58	22	20	8	48	1.76
1706770--1706843	37	2.0	37	97	0	139	22	18	9	48	1.77
1713976--1714001	13	2.0	13	100	0	52	30	15	15	38	1.88
1713956--1714019	32	2.0	33	90	3	103	28	14	15	42	1.86
1714661--1714699	18	2.2	18	100	0	78	38	15	5	41	1.69
1716595--1716632	13	2.9	13	96	0	67	31	15	18	34	1.92
1718714--1718744	15	2.1	15	93	0	53	12	22	16	48	1.80
1722215--1722278	32	2.0	33	87	3	94	26	14	15	43	1.85
1729461--1729615	69	2.2	70	85	7	208	38	26	1	33	1.68
1733788--1733822	13	2.7	13	100	0	70	62	0	37	0	0.95
1733788--1733820	6	5.0	7	85	14	52	60	0	39	0	0.97
1737848--1737878	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738344--1738384	13	3.0	13	82	10	55	70	0	2	26	0.99
1738976--1739025	13	3.8	13	78	5	55	44	0	0	56	0.99
1738926--1738998	37	2.0	37	84	10	96	43	0	1	54	1.08
1738962--1739013	22	2.4	21	78	15	61	48	0	0	51	1.00
1738955--1739038	27	3.0	28	75	16	86	45	0	0	54	0.99
1740087--1740121	17	2.1	17	94	0	61	34	11	2	51	1.53
1740663--1740718	22	2.5	22	85	5	78	37	0	0	62	0.95
1746667--1746721	19	2.8	20	80	5	76	32	16	18	32	1.93
1756658--1756782	52	2.4	52	90	0	205	27	16	19	36	1.93
1756687--1756802	52	2.2	52	87	3	162	29	18	18	33	1.95
1756791--1756815	13	1.9	13	100	0	50	36	16	16	32	1.90
1756856--1756922	33	2.0	33	88	0	98	40	13	11	34	1.81
1756878--1756902	13	1.9	13	100	0	50	32	16	16	36	1.90
1757853--1758184	49	6.7	49	86	1	450	31	17	26	25	1.97
1757853--1758178	97	3.3	97	89	2	463	31	17	26	25	1.97
1757844--1758184	146	2.3	146	89	2	502	31	16	26	25	1.97
1758177--1758346	33	5.2	33	90	6	269	18	18	35	27	1.94
1758177--1758347	67	2.6	66	92	4	278	18	18	35	27	1.94
1758357--1758794	34	13.9	32	74	17	395	33	13	34	19	1.90
1758362--1758906	61	8.9	59	77	15	334	31	13	34	20	1.92
1758357--1758853	95	5.4	91	79	14	441	32	12	34	20	1.90
1758451--1758696	122	2.0	121	93	0	420	33	13	33	19	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1758580--1758791	94	2.2	93	90	5	329	33	13	33	20	1.91
1758814--1758940	32	4.2	31	83	11	147	26	15	33	24	1.95
1758827--1758949	31	4.0	31	86	9	155	26	16	33	24	1.96
1759876--1759921	16	2.9	16	84	9	58	0	10	6	82	0.83
1762012--1762099	19	4.9	19	76	17	98	36	14	18	30	1.91
1762033--1762110	32	2.4	32	97	0	147	39	15	16	28	1.89
1762084--1762110	13	2.1	13	100	0	54	40	14	14	29	1.86
1764341--1764384	19	2.3	19	84	7	54	2	22	0	75	0.92
1766397--1766702	60	5.2	60	76	7	252	43	12	22	22	1.86
1766429--1766658	30	7.8	30	67	8	130	43	11	21	23	1.86

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