genome.fa.s92.2.7.7.80.10.50.1000.14.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  14  of  19  ( 2187 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)
1671314--1671361	17	2.7	18	80	9	53	62	2	0	35	1.07
1672379--1672440	15	4.3	15	72	8	58	50	0	3	46	1.17
1672377--1672449	37	2.0	37	86	10	105	47	0	5	46	1.25
1672384--1672467	37	2.2	38	81	12	100	52	0	4	42	1.22
1674838--1674893	22	2.4	24	74	22	64	58	0	0	41	0.98
1674844--1674903	22	2.7	22	85	10	79	60	0	0	40	0.97
1674846--1674902	21	2.8	20	80	17	73	61	0	0	38	0.96
1675224--1675266	21	2.1	20	83	12	52	37	0	0	62	0.95
1675515--1675584	13	5.3	13	73	23	58	37	2	1	58	1.22
1676190--1676328	65	2.1	64	79	11	149	51	0	1	47	1.09
1676224--1676324	38	2.7	39	73	19	101	54	0	0	44	1.06
1676237--1676316	16	4.9	16	71	18	58	55	0	1	43	1.08
1676630--1676667	20	1.9	20	88	0	58	52	0	0	47	1.00
1677207--1677238	16	1.9	17	93	6	57	37	0	3	59	1.13
1677169--1677316	78	1.9	79	90	1	235	45	1	8	44	1.43
1677953--1677999	17	2.9	16	78	12	51	55	0	0	44	0.99
1683449--1683478	2	15.0	2	100	0	60	50	0	0	50	1.00
1683712--1683747	16	2.2	16	90	5	54	44	8	2	44	1.48
1683712--1683753	15	2.6	16	88	7	59	40	7	4	47	1.52
1684088--1684143	23	2.5	24	77	13	57	53	0	0	46	1.00
1684086--1684139	27	2.0	27	82	7	65	53	0	0	46	1.00
1684121--1684177	20	3.0	20	84	5	73	52	3	0	43	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1689660--1689722	29	2.1	30	88	2	92	58	7	3	30	1.42
1691074--1691116	22	2.0	22	85	0	59	41	2	6	48	1.43
1691550--1691608	25	2.4	25	72	13	68	44	0	0	55	0.99
1691585--1691623	16	2.4	17	83	12	55	64	0	0	35	0.94
1691676--1691711	17	2.1	17	89	0	54	33	2	0	63	1.08
1691683--1691711	9	3.3	9	90	9	51	31	0	0	68	0.89
1691801--1691848	19	2.5	19	77	12	53	54	0	0	45	0.99
1692369--1692393	12	2.1	12	100	0	50	48	0	0	52	1.00
1698691--1698748	27	2.1	27	84	6	73	25	43	5	25	1.75
1698889--1698937	9	5.4	9	85	0	53	34	48	0	16	1.46
1698900--1698933	12	2.8	12	86	0	50	35	55	0	8	1.31
1699425--1699505	23	3.3	23	75	18	92	46	3	4	44	1.42
1700271--1700314	20	2.2	20	83	4	52	84	2	11	2	0.81
1700686--1700725	18	2.2	18	90	4	62	42	0	0	57	0.98
1700676--1700725	19	2.6	19	84	9	66	46	0	0	54	1.00
1701436--1701482	16	2.9	16	81	12	53	72	2	0	25	0.96
1701982--1702029	19	2.5	19	80	9	53	35	2	0	62	1.07
1702587--1702625	3	12.7	3	83	5	51	58	0	5	35	1.20
1708381--1708476	29	3.5	26	80	16	88	45	1	1	52	1.14
1708409--1708481	25	2.7	25	80	17	76	49	0	1	49	1.09
1710162--1710196	2	17.5	2	100	0	70	51	0	0	48	1.00
1712059--1712092	16	2.1	16	88	0	50	67	8	2	20	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713783--1713821	18	2.2	17	86	4	51	46	0	0	53	1.00
1713796--1713845	21	2.5	20	81	15	59	50	0	0	50	1.00
1713826--1713850	13	1.9	13	100	0	50	56	0	0	44	0.99
1714129--1714157	2	15.0	2	92	7	51	48	0	0	51	1.00
1714845--1715056	109	2.0	103	83	9	266	39	9	9	41	1.71
1715242--1715487	126	2.0	124	87	3	359	36	13	10	39	1.79
1717294--1717332	20	2.0	20	85	10	53	51	0	0	48	1.00
1717847--1717904	16	3.6	16	69	0	53	34	5	3	56	1.38
1717845--1717914	32	2.2	32	89	0	104	32	8	4	54	1.50
1717845--1717914	16	4.4	16	69	7	52	32	8	4	54	1.50
1718158--1718205	21	2.3	20	86	10	62	50	0	4	45	1.21
1718778--1718819	22	1.9	22	90	9	68	61	0	0	38	0.96
1720041--1720310	73	3.7	72	80	6	262	25	21	17	35	1.95
1720287--1720359	36	2.0	36	100	0	146	27	15	21	35	1.93
1724742--1724779	5	7.6	5	93	0	58	5	18	0	76	0.97
1725355--1725392	3	13.0	3	83	5	51	63	2	2	31	1.22
1725850--1725945	30	3.2	30	77	16	119	51	0	0	48	1.00
1726234--1726297	23	2.6	23	76	14	56	57	0	0	42	0.98
1726229--1726289	27	2.3	27	79	0	68	52	0	0	47	1.00
1726231--1726297	24	2.6	25	73	17	66	56	0	0	43	0.99
1726245--1726319	40	1.9	37	84	12	98	56	0	0	44	0.99
1726285--1726341	14	4.2	13	73	8	51	57	1	1	38	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1726285--1726330	13	3.4	14	76	11	51	56	2	0	41	1.11
1726265--1726320	19	2.8	19	74	12	51	57	0	0	42	0.99
1727208--1727256	6	8.3	6	81	4	64	40	0	0	59	0.98
1727182--1727256	35	2.1	35	85	7	98	38	0	1	60	1.06
1727207--1727252	23	2.0	23	91	0	74	39	0	0	60	0.97
1729270--1729319	14	3.6	14	74	17	50	48	0	2	50	1.12
1729279--1729348	24	3.0	22	81	12	70	47	0	0	52	1.00
1729316--1729384	31	2.2	32	80	12	81	39	0	0	60	0.97
1729362--1729414	22	2.4	24	82	17	71	39	0	0	60	0.97
1730690--1730715	13	2.0	13	100	0	52	69	0	0	30	0.89
1731865--1731955	19	4.7	19	76	13	78	30	1	0	68	0.97
1731865--1731953	29	3.0	30	74	9	94	30	1	0	68	0.97
1731922--1731963	19	2.4	17	81	14	50	33	2	0	64	1.07
1732094--1732167	20	3.8	19	70	25	57	59	1	0	39	1.06
1732094--1732167	14	5.2	14	75	16	64	59	1	0	39	1.06
1735117--1735142	2	13.0	2	100	0	52	50	0	50	0	1.00
1736946--1737003	19	3.0	20	82	14	68	39	0	1	58	1.08
1745277--1745342	28	2.3	29	84	2	80	39	1	0	59	1.07
1745333--1745364	15	2.2	15	94	5	57	65	0	0	34	0.93
1747395--1747446	17	3.0	17	77	2	50	5	13	5	75	1.18
1748065--1748094	3	10.0	3	100	0	60	66	0	0	33	0.92
1748965--1749003	18	2.1	19	90	4	62	30	5	2	61	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749883--1749937	16	3.4	16	74	20	51	49	1	0	49	1.11
1749863--1749939	32	2.3	33	86	4	102	48	1	0	50	1.09
1749808--1749954	19	7.6	19	67	23	76	44	2	0	53	1.12
1750285--1750325	22	2.0	21	86	13	59	48	0	0	51	1.00
1752354--1752400	16	2.9	16	78	12	51	44	6	0	48	1.28
1752555--1752604	16	3.0	17	85	11	68	56	4	0	40	1.18
1754670--1754716	16	2.9	16	77	20	53	38	0	2	59	1.09
1754654--1754716	32	2.0	32	84	12	85	39	0	1	58	1.07
1754669--1754717	14	3.1	15	76	18	55	38	0	2	59	1.09
1756146--1756317	29	6.0	28	66	18	86	44	0	0	55	0.99
1756158--1756207	21	2.3	21	83	10	57	52	0	0	48	1.00
1756195--1756245	17	3.1	17	72	18	54	31	0	0	68	0.90
1756123--1756302	88	2.0	89	82	5	222	42	0	0	56	1.03
1756191--1756316	57	2.2	56	78	16	141	42	0	0	57	0.98
1757127--1757178	17	3.1	15	82	17	59	55	0	0	44	0.99
1757223--1757252	12	2.4	13	94	5	53	40	0	0	60	0.97
1757310--1757353	19	2.4	19	85	14	58	38	0	0	61	0.96
1757792--1757830	20	2.0	20	90	5	62	28	0	2	69	1.02
1758266--1758335	27	2.6	26	80	8	86	61	2	0	35	1.11
1758266--1758341	19	4.2	19	73	14	72	60	2	0	36	1.11
1758950--1758988	3	13.0	3	100	0	78	33	0	0	66	0.92
1760028--1760072	23	2.0	23	82	8	56	60	2	0	37	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1760918--1761003	30	2.8	29	77	15	77	56	1	3	38	1.24
1764637--1764675	20	2.0	19	85	14	53	53	0	0	46	1.00
1764637--1764675	19	2.0	20	85	14	55	53	0	0	46	1.00
1766115--1766166	24	2.2	25	82	10	72	67	3	0	28	1.08
1766231--1766277	20	2.3	21	81	3	60	44	0	0	55	0.99
1770204--1770236	2	16.5	2	93	0	57	48	0	0	51	1.00
1770816--1770869	18	2.8	21	83	13	71	42	0	0	57	0.98
1770815--1770870	20	2.6	23	72	21	57	42	0	0	57	0.99
1771989--1772040	8	6.1	8	80	12	59	42	0	0	57	0.98
1772360--1772451	27	3.2	27	72	20	80	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19