genome.fa.s89.2.7.7.80.10.50.1000.11.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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  ( 3236 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)
1535524--1535552	14	2.0	15	93	6	51	10	0	6	82	0.83
1537358--1537497	16	8.9	16	64	18	53	54	0	2	43	1.12
1537348--1537407	11	5.9	10	77	13	52	61	0	0	38	0.96
1537453--1537504	16	3.2	16	75	8	52	59	0	0	40	0.97
1539029--1539121	47	2.0	47	97	2	179	26	15	12	45	1.82
1544763--1544828	26	2.6	25	78	7	69	56	3	3	37	1.30
1545911--1545986	37	2.0	38	82	12	95	56	0	3	39	1.18
1546843--1546873	2	16.0	2	93	6	55	48	0	0	51	1.00
1546893--1546947	17	3.4	17	72	25	55	56	0	0	43	0.99
1546933--1546999	11	6.0	11	72	10	55	56	2	0	40	1.14
1546893--1547011	56	2.3	49	79	15	123	52	2	0	44	1.14
1550237--1550274	20	1.9	20	88	0	58	44	2	2	50	1.30
1550445--1550482	20	1.9	20	88	0	58	68	0	0	31	0.90
1551471--1551517	23	2.0	23	91	0	76	40	12	10	36	1.78
1557456--1557518	26	2.4	26	80	19	69	65	1	3	30	1.18
1557518--1557565	23	2.0	25	84	8	64	45	0	0	54	0.99
1557969--1558019	19	2.6	19	76	14	50	49	1	1	47	1.24
1558625--1558666	13	3.2	13	83	10	50	47	0	0	52	1.00
1558667--1558739	28	2.7	29	69	23	68	53	0	0	46	1.00
1559540--1559632	31	3.0	31	69	9	82	40	1	6	51	1.35
1560384--1560419	2	18.0	2	94	0	63	0	0	47	52	1.00
1578072--1578116	19	2.4	18	86	13	65	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578334--1578367	2	17.0	2	100	0	68	50	0	0	50	1.00
1588958--1588988	16	1.9	16	100	0	62	45	9	0	45	1.36
1589334--1589400	21	3.3	20	80	14	66	56	0	0	43	0.99
1589334--1589415	41	2.0	40	81	6	94	54	2	1	41	1.21
1589584--1589618	13	2.5	14	90	9	54	42	0	0	57	0.99
1589872--1589921	22	2.3	23	83	13	61	64	0	0	36	0.94
1589897--1589978	14	5.6	14	69	19	53	53	1	0	45	1.08
1589882--1589932	18	2.8	18	78	21	61	64	0	0	35	0.94
1589949--1589978	7	4.4	7	91	8	53	46	0	0	53	1.00
1591198--1591223	3	8.7	3	100	0	52	30	0	0	69	0.89
1596231--1596260	14	2.2	14	94	5	53	60	0	0	40	0.97
1596214--1596273	21	3.0	21	74	13	63	48	0	0	51	1.00
1607414--1607451	18	2.2	18	86	9	53	18	2	10	68	1.30
1607555--1607587	2	16.5	2	93	0	57	45	0	3	51	1.16
1608203--1608238	16	2.2	16	90	0	54	38	0	0	61	0.96
1608209--1608277	9	7.9	9	74	11	54	36	1	2	59	1.21
1608295--1608332	16	2.6	14	88	12	51	57	0	0	42	0.98
1608893--1608946	20	2.7	19	77	5	54	59	0	0	40	0.98
1609867--1609903	18	2.0	19	89	5	58	45	2	0	51	1.15
1611862--1611914	3	18.0	3	88	11	83	67	1	0	30	1.01
1612512--1612540	8	3.6	8	100	0	58	89	0	0	10	0.48
1618850--1618898	11	4.4	11	82	14	64	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618839--1618891	23	2.3	23	83	6	63	58	3	0	37	1.16
1618850--1618898	5	9.8	5	79	16	57	63	0	0	36	0.95
1618853--1618898	13	3.9	12	83	16	53	63	0	0	36	0.95
1618906--1618966	26	2.4	25	81	10	70	52	0	0	47	1.00
1618922--1618958	18	2.1	17	90	5	56	45	0	0	54	1.00
1620302--1620398	22	3.7	28	70	24	77	44	0	0	55	0.99
1620325--1620376	21	2.6	21	80	17	65	40	0	0	59	0.97
1620304--1620399	49	1.9	51	87	8	144	42	0	0	57	0.98
1620357--1620408	27	2.0	27	88	3	79	46	0	1	51	1.12
1627860--1628060	100	2.0	100	92	0	332	27	16	13	41	1.86
1629551--1629590	19	2.3	18	87	12	57	45	2	0	52	1.14
1630877--1630928	17	3.1	17	72	5	52	46	1	0	51	1.12
1631865--1631923	24	2.5	25	81	15	72	49	0	1	49	1.11
1631871--1631917	22	2.2	21	85	11	60	51	0	2	46	1.13
1632331--1632411	41	2.0	42	85	7	112	49	0	0	50	1.00
1632344--1632431	30	3.0	29	68	19	83	51	0	0	48	1.00
1632386--1632428	17	2.5	16	78	14	50	58	0	0	41	0.98
1632991--1633033	22	2.0	22	82	13	54	6	30	4	58	1.45
1633802--1633830	14	2.1	14	93	6	51	44	6	0	48	1.29
1634093--1634161	17	4.1	17	68	17	54	47	5	1	44	1.35
1635693--1635742	24	2.2	24	89	10	79	70	0	4	26	1.05
1638228--1638276	25	1.9	26	83	4	64	44	6	0	48	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638700--1638737	2	19.0	2	94	0	58	50	5	0	44	1.24
1640719--1640757	21	1.9	21	89	5	62	66	0	0	33	0.92
1642279--1642317	13	2.7	14	84	15	53	53	0	0	46	1.00
1644276--1644319	2	22.0	2	100	0	88	50	0	50	0	1.00
1646456--1646489	16	2.1	17	88	5	52	73	0	0	26	0.83
1646686--1646729	2	22.0	2	100	0	88	50	0	0	50	1.00
1646909--1646952	21	2.2	20	91	4	70	56	0	0	43	0.99
1646918--1646956	17	2.4	16	87	12	53	58	0	0	41	0.98
1647640--1647722	25	3.1	25	71	11	67	44	0	0	55	0.99
1649120--1649151	2	16.0	2	100	0	64	50	0	0	50	1.00
1651039--1651076	2	19.0	2	88	0	58	44	0	52	2	1.14
1651491--1651543	16	3.2	17	77	15	58	54	1	0	43	1.11
1652659--1652706	16	2.9	16	82	17	62	45	2	0	52	1.12
1652672--1652702	15	2.0	16	93	6	55	45	0	0	54	0.99
1652748--1652801	22	2.4	23	81	6	65	66	0	1	31	1.02
1652811--1652883	28	2.7	26	82	14	87	56	0	0	43	0.99
1652788--1652883	28	3.6	27	76	18	85	56	1	1	41	1.13
1652772--1652888	44	2.7	41	76	19	96	58	0	0	40	1.10
1654779--1654804	13	2.0	13	100	0	52	30	0	0	69	0.89
1655865--1655907	2	21.5	2	85	0	59	55	0	0	44	0.99
1657964--1657992	2	14.5	2	100	0	58	48	0	0	51	1.00
1673199--1673232	12	2.7	13	86	9	52	20	0	0	79	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1679969--1679997	3	9.7	3	100	0	58	65	0	34	0	0.93
1680426--1680475	18	2.9	16	75	13	55	60	0	0	40	0.97
1680672--1680714	13	3.3	13	93	6	70	55	0	0	44	0.99
1680716--1680811	35	2.7	34	79	10	113	53	3	0	43	1.16
1688115--1688171	29	1.9	28	82	10	69	54	0	1	43	1.10
1688151--1688232	23	3.9	23	70	19	56	45	0	3	51	1.19
1688165--1688230	14	4.7	14	69	25	50	42	0	4	53	1.21
1691575--1691630	15	3.8	15	70	13	53	55	0	1	42	1.10
1691817--1691864	2	24.0	2	86	0	60	54	4	0	41	1.20
1691825--1691864	16	2.5	16	100	0	80	55	5	0	40	1.22
1692179--1692222	22	1.9	22	86	9	61	27	6	11	54	1.61
1693655--1693759	52	2.0	52	98	0	201	36	20	12	31	1.89
1696270--1696295	2	13.0	2	100	0	52	50	0	0	50	1.00
1696466--1696492	3	9.0	3	100	0	54	33	0	0	66	0.92
1697749--1697793	14	2.9	15	81	18	56	51	0	0	48	1.00
1698497--1698573	39	2.0	40	87	7	113	29	18	24	27	1.98
1710086--1710136	13	4.1	13	80	14	54	52	1	0	45	1.12
1710341--1710383	9	4.9	9	83	16	63	30	0	2	67	1.03
1710551--1710581	16	1.9	16	93	0	53	77	0	0	22	0.77
1711818--1711891	26	3.0	23	80	9	76	62	1	2	33	1.18
1711975--1712017	20	2.1	20	83	12	52	53	0	0	46	1.00
1712984--1713026	16	2.7	16	77	0	50	48	4	0	46	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713038--1713077	21	2.0	20	85	5	53	57	5	0	37	1.21
1714062--1714093	16	1.9	17	93	6	57	56	0	0	43	0.99
1720778--1720819	21	2.0	21	90	9	68	33	0	0	66	0.92
1720940--1720976	18	1.9	18	89	10	56	35	10	0	54	1.36
1722809--1722855	11	4.5	11	84	7	62	21	0	4	74	0.99
1722833--1722866	6	5.8	6	86	6	52	17	0	0	82	0.67
1736504--1736550	2	23.5	2	100	0	94	0	48	0	51	1.00
1737057--1737125	21	3.1	23	71	12	72	37	0	2	59	1.12
1737045--1737112	31	2.3	28	73	23	68	36	0	2	60	1.12
1737062--1737129	15	4.7	14	76	8	57	38	0	2	58	1.13

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