genome.fa.s189.2.7.7.80.10.50.1000.7.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: Scaffold189
Parameters: 2 7 7 80 10 50 1000
Length:  2243555

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1067 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)
1494419--1494456	2	19.0	2	100	0	76	50	0	0	50	1.00
1495116--1495169	27	2.0	28	85	10	76	51	0	0	48	1.00
1495603--1495627	7	3.6	7	100	0	50	48	28	0	24	1.52
1504026--1504053	2	14.0	2	100	0	56	50	0	0	50	1.00
1504721--1504763	2	21.5	2	100	0	86	48	0	0	51	1.00
1511210--1511249	21	1.9	21	90	10	64	40	0	0	60	0.97
1517077--1517108	3	10.7	3	100	0	64	31	0	0	68	0.90
1517818--1517845	3	9.3	3	100	0	56	67	0	0	32	0.91
1518036--1518061	2	13.0	2	100	0	52	50	0	0	50	1.00
1522045--1522104	21	2.9	20	75	7	66	35	0	0	65	0.93
1522304--1522337	17	2.1	16	88	5	50	44	0	0	55	0.99
1523130--1523191	27	2.4	26	82	15	76	67	0	0	32	0.91
1523164--1523297	5	27.2	5	67	17	57	56	0	0	43	0.99
1523130--1523305	32	5.2	33	71	16	101	58	0	0	41	0.98
1523574--1523630	24	2.3	25	85	11	82	57	0	0	42	0.98
1523595--1523664	24	3.0	23	82	14	72	50	0	0	50	1.00
1526692--1526722	2	15.5	2	100	0	62	48	0	0	51	1.00
1530194--1530223	2	15.0	2	100	0	60	0	50	0	50	1.00
1533959--1533984	2	13.0	2	100	0	52	50	0	0	50	1.00
1535575--1535610	18	1.9	19	88	5	56	50	0	8	41	1.33
1536756--1536797	16	2.7	15	85	10	50	42	2	4	50	1.36
1536788--1536836	20	2.5	20	80	6	55	36	6	14	42	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1538770--1538810	2	20.5	2	100	0	82	48	0	0	51	1.00
1539380--1539409	2	15.0	2	100	0	60	50	0	0	50	1.00
1541774--1541806	2	16.5	2	100	0	66	48	0	0	51	1.00
1545331--1545369	20	2.0	20	94	0	69	64	0	0	35	0.94
1551334--1551395	12	5.1	12	83	12	65	87	0	11	1	0.62
1551344--1551396	18	3.0	18	88	2	81	86	0	13	0	0.56
1551342--1551405	29	2.2	29	91	2	103	85	1	12	0	0.66
1551350--1551405	18	3.2	16	79	20	60	85	1	12	0	0.67
1551342--1551395	1	54.0	1	77	0	54	88	0	11	0	0.50
1551413--1551509	36	2.7	36	84	9	112	32	0	3	63	1.10
1552377--1552433	19	2.9	19	82	15	71	80	0	17	1	0.79
1552733--1552766	18	1.9	17	88	5	50	35	2	5	55	1.39
1553468--1553508	17	2.5	17	84	7	59	43	0	0	56	0.99
1557916--1557976	30	2.0	30	96	0	113	44	8	8	39	1.64
1562031--1562066	19	1.9	18	94	5	63	30	11	13	44	1.79
1562395--1562489	16	5.5	19	70	24	61	47	0	0	52	1.00
1562417--1562522	10	10.9	10	67	19	64	40	0	0	59	0.97
1562369--1562488	18	6.2	20	66	18	60	45	0	0	53	1.06
1562404--1562505	32	3.0	33	80	15	109	45	0	0	54	0.99
1562403--1562532	33	4.0	32	73	22	103	42	0	0	57	0.98
1562369--1562553	38	4.9	37	71	18	114	41	0	0	57	1.07
1562450--1562559	28	3.9	28	74	17	86	37	0	0	61	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562510--1562583	24	3.1	24	86	3	87	40	2	0	56	1.13
1562545--1562586	17	2.7	15	82	13	57	47	2	0	50	1.14
1562851--1562880	2	15.0	2	92	0	51	46	0	0	53	1.00
1566375--1566413	2	19.5	2	89	0	60	48	2	2	46	1.29
1576583--1576629	22	2.1	22	84	11	60	34	0	8	57	1.29
1579448--1579498	2	26.0	2	96	4	95	0	50	0	49	1.00
1584168--1584206	2	19.5	2	100	0	78	0	48	0	51	1.00
1588727--1588764	4	9.8	4	82	5	51	23	2	0	73	0.95
1591889--1591933	2	22.5	2	95	0	72	48	4	0	46	1.22
1593729--1593760	2	16.0	2	93	0	55	46	0	3	50	1.17
1598717--1598762	20	2.3	20	88	7	67	67	0	0	32	0.91
1598708--1598761	15	3.7	15	79	13	60	64	0	0	35	0.94
1601278--1601312	3	12.0	3	93	6	63	31	0	0	68	0.90
1605894--1605918	2	12.5	2	100	0	50	52	0	0	48	1.00
1606214--1606250	2	18.5	2	94	0	56	56	43	0	0	0.99
1606250--1606275	2	13.0	2	100	0	52	50	0	0	50	1.00
1611094--1611142	25	2.0	24	84	4	62	51	0	0	48	1.00
1611990--1612039	24	2.1	24	100	0	100	56	4	8	32	1.47
1634179--1634251	28	2.9	27	78	13	66	64	1	0	34	1.02
1640242--1640289	22	2.3	20	78	7	51	50	0	4	45	1.21
1642815--1642846	6	5.3	6	96	0	55	31	65	3	0	1.08
1643052--1643087	16	2.2	16	95	0	63	38	0	8	52	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1643996--1644020	2	12.5	2	100	0	50	48	0	0	52	1.00
1655848--1655897	2	25.0	2	100	0	100	0	50	0	50	1.00
1656735--1656790	24	2.4	23	80	11	60	48	5	1	44	1.36
1657413--1657439	2	13.5	2	100	0	54	51	0	48	0	1.00
1657549--1657599	18	2.9	17	80	13	50	41	0	1	56	1.10
1657636--1657672	14	2.6	15	83	8	51	40	0	0	59	0.97
1662460--1662500	20	2.0	21	95	4	75	51	0	0	48	1.00
1662458--1662503	20	2.3	19	89	10	74	52	0	0	47	1.00
1666910--1666945	14	2.6	14	95	0	63	16	19	27	36	1.93
1668562--1668676	56	2.1	56	100	0	230	36	10	15	37	1.82
1672538--1672580	3	14.3	3	100	0	86	67	0	0	32	0.91
1674764--1674790	2	13.5	2	100	0	54	0	48	0	51	1.00
1674790--1674814	2	12.5	2	100	0	50	48	0	0	52	1.00
1676597--1676732	70	1.9	70	92	0	227	36	8	5	50	1.56
1676962--1676996	2	17.5	2	87	0	52	45	2	2	48	1.32
1680801--1680851	25	2.1	24	89	7	77	21	5	0	72	1.05
1682534--1682571	18	2.1	19	90	5	60	44	0	0	55	0.99
1684170--1684210	18	2.3	19	79	12	50	46	0	7	46	1.30
1684238--1684313	37	2.1	35	85	4	98	60	1	1	36	1.13
1684268--1684293	7	3.7	7	100	0	52	69	0	0	30	0.89
1693907--1693943	12	3.0	12	92	4	56	29	24	0	45	1.53
1706260--1706289	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707242--1707274	14	2.2	16	89	10	52	0	33	39	27	1.57
1709646--1709677	15	2.1	15	100	0	64	18	34	12	34	1.89
1714506--1714530	2	12.5	2	100	0	50	52	0	0	48	1.00
1715906--1715955	21	2.4	21	90	3	75	64	6	24	6	1.39
1717041--1717142	39	2.6	39	78	3	98	37	18	22	21	1.94
1734319--1734369	20	2.5	20	78	6	59	50	3	0	45	1.20
1736785--1736809	12	2.1	12	100	0	50	76	0	24	0	0.80
1739418--1739452	2	17.0	2	88	5	52	48	0	5	45	1.26
1740413--1740452	2	20.0	2	100	0	80	50	0	0	50	1.00
1742170--1742204	15	2.3	15	90	9	54	74	0	0	25	0.82
1745255--1745300	2	23.0	2	100	0	92	50	0	0	50	1.00
1756606--1756630	2	12.5	2	100	0	50	52	0	0	48	1.00
1759776--1759812	2	19.0	2	94	5	67	48	0	0	51	1.00
1759957--1759999	22	2.0	22	85	0	59	48	2	0	48	1.14
1760186--1760211	11	2.4	11	100	0	52	53	0	7	38	1.30
1762606--1762633	2	14.0	2	100	0	56	50	0	50	0	1.00
1766082--1766108	2	13.5	2	100	0	54	51	0	0	48	1.00
1767348--1767381	2	17.0	2	100	0	68	50	0	0	50	1.00
1780451--1780540	30	3.0	29	71	23	78	40	3	3	53	1.34
1780451--1780540	31	3.1	28	72	17	83	40	3	3	53	1.34
1780510--1780553	20	2.2	19	84	12	52	47	0	0	52	1.00
1780493--1780542	24	2.0	26	84	11	68	44	2	2	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1783181--1783223	18	2.5	17	84	3	59	25	0	0	74	0.82
1783171--1783229	21	2.9	19	80	14	57	28	0	0	71	0.87
1785161--1785217	2	28.5	2	92	0	87	49	5	0	45	1.24
1788261--1788288	2	14.0	2	100	0	56	50	0	0	50	1.00
1798011--1798039	9	3.3	9	95	4	51	34	0	0	65	0.93
1799768--1799799	15	2.1	15	94	0	55	12	37	25	25	1.91
1824661--1824688	2	14.0	2	100	0	56	50	0	0	50	1.00
1825858--1826076	34	6.5	33	84	6	262	41	26	7	25	1.82
1825858--1826076	67	3.3	67	86	1	305	41	26	7	25	1.82
1825858--1826076	101	2.2	100	90	3	341	41	26	7	25	1.82

Tables:   1   2   3   4   5   6   7   8   9