genome.fa.s320.2.7.7.80.10.50.1000.11.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: Scaffold320
Parameters: 2 7 7 80 10 50 1000
Length:  2598547

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

This is table  11  of  17  ( 1971 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)
1563850--1563874	2	12.5	2	100	0	50	48	0	0	52	1.00
1564232--1564256	5	5.0	5	100	0	50	40	0	0	60	0.97
1564273--1564317	14	3.2	14	78	9	56	51	0	0	48	1.00
1564597--1564638	2	21.0	2	100	0	84	50	0	0	50	1.00
1565738--1565786	16	3.1	15	80	13	53	65	2	4	28	1.22
1565746--1565779	17	1.9	18	94	5	61	70	0	2	26	1.01
1568028--1568370	97	3.5	96	77	8	327	28	25	12	33	1.92
1570197--1570254	24	2.3	26	88	5	84	34	25	13	25	1.93
1570244--1570309	27	2.4	27	89	0	96	24	10	19	45	1.82
1570271--1570340	24	2.8	24	77	14	70	21	10	22	45	1.81
1570387--1570424	20	1.9	20	94	0	67	15	50	5	28	1.66
1572897--1572942	21	2.1	22	84	4	58	34	19	26	19	1.96
1574806--1574863	24	2.3	26	88	5	84	34	25	13	25	1.93
1574853--1574918	27	2.4	27	89	0	96	24	10	19	45	1.82
1574880--1574949	24	2.8	24	77	14	70	21	10	22	45	1.81
1574996--1575033	20	1.9	20	94	0	67	15	50	5	28	1.66
1575433--1575496	5	13.8	5	72	18	50	35	0	1	62	1.05
1575431--1575496	25	2.7	24	88	9	89	36	0	1	62	1.05
1584344--1584378	2	17.5	2	100	0	70	51	0	48	0	1.00
1585965--1586010	2	23.0	2	100	0	92	50	0	0	50	1.00
1588157--1588204	22	2.2	21	88	3	69	60	2	31	6	1.33
1588526--1588575	24	2.1	24	81	7	57	8	10	30	52	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588592--1588622	9	3.4	9	95	0	53	29	0	25	45	1.54
1589098--1589131	2	17.5	2	87	6	52	47	0	0	52	1.00
1591044--1591076	4	8.2	4	87	12	50	51	0	0	48	1.00
1592005--1592062	25	2.3	24	81	18	66	56	1	3	37	1.26
1592322--1592372	16	2.6	22	74	25	53	33	0	0	66	0.92
1598131--1598178	2	24.0	2	100	0	96	50	0	0	50	1.00
1600132--1600167	2	18.5	2	94	5	65	50	0	0	50	1.00
1601442--1601485	17	2.3	20	81	14	58	22	0	4	72	1.02
1601445--1601486	19	2.4	17	88	8	57	23	0	4	71	1.05
1602412--1602455	14	3.0	14	83	6	52	40	4	0	54	1.21
1602533--1602565	2	16.5	2	100	0	66	48	0	0	51	1.00
1603328--1603376	3	16.3	3	100	0	98	32	0	0	67	0.91
1605592--1605664	6	12.3	6	71	18	55	34	1	2	61	1.19
1605751--1605819	18	3.8	18	72	20	63	65	4	0	30	1.12
1605741--1605818	34	2.2	36	86	13	110	67	3	0	28	1.07
1605741--1605797	5	10.8	5	78	17	62	71	1	0	26	0.95
1606329--1606360	6	5.3	6	100	0	64	84	0	15	0	0.63
1607559--1607718	76	2.1	77	91	1	259	46	21	11	20	1.81
1614016--1614066	21	2.5	20	83	6	57	33	3	1	60	1.26
1615440--1615759	71	4.6	73	69	14	237	31	3	12	52	1.55
1615440--1615757	138	2.3	135	78	12	322	32	3	12	52	1.55
1619907--1619987	43	1.9	42	85	9	112	48	2	1	48	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621331--1621389	30	2.0	30	86	0	82	64	3	6	25	1.34
1621563--1621606	18	2.4	18	81	11	54	50	2	0	47	1.13
1622618--1622682	20	3.1	21	74	24	66	58	0	1	40	1.07
1622955--1622990	17	2.2	17	90	5	56	33	0	5	61	1.19
1622962--1623035	23	3.4	21	78	14	71	35	0	1	63	1.03
1622965--1623032	24	2.9	23	82	10	68	35	0	1	63	1.04
1623004--1623051	20	2.3	20	78	3	51	37	0	2	60	1.09
1623037--1623081	23	2.0	22	87	8	65	48	0	0	51	1.00
1623186--1623227	22	1.9	22	85	0	57	59	7	4	28	1.44
1623388--1623556	70	2.3	72	79	13	177	32	0	11	55	1.40
1623639--1623672	15	2.3	15	89	0	50	73	0	23	2	0.97
1627525--1627579	22	2.6	21	83	11	60	40	1	0	58	1.09
1627508--1627636	68	1.9	69	81	10	158	45	2	0	51	1.19
1628208--1628258	24	2.3	21	83	10	57	43	1	1	52	1.23
1628207--1628264	21	2.8	21	78	5	64	46	1	1	50	1.22
1628313--1628382	26	2.8	24	75	14	68	45	0	1	52	1.09
1629620--1629666	19	2.6	18	83	6	51	59	2	0	38	1.09
1630018--1630204	100	1.9	101	88	1	286	43	8	3	44	1.52
1630356--1630397	21	2.1	19	86	13	57	59	0	0	40	0.97
1638028--1638082	2	27.5	2	96	0	101	0	49	1	49	1.11
1639282--1639308	4	6.8	4	100	0	54	22	0	0	77	0.76
1643211--1643265	20	2.6	21	77	13	60	29	12	12	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648548--1648588	2	21.0	2	95	5	75	48	0	0	51	1.00
1652761--1652788	2	14.0	2	100	0	56	50	0	50	0	1.00
1653116--1653180	4	17.0	4	83	12	75	80	1	18	0	0.80
1653107--1653172	24	2.9	23	82	8	82	78	1	18	1	0.90
1653116--1653180	33	1.9	35	90	6	107	80	1	18	0	0.80
1653181--1653238	23	2.5	23	75	13	57	31	0	3	65	1.09
1653392--1653453	11	5.5	11	76	16	65	29	0	0	70	0.87
1653395--1653452	24	2.4	23	81	13	73	29	0	0	70	0.87
1653367--1653454	17	4.9	19	72	20	73	30	2	1	65	1.12
1654568--1654674	51	2.1	50	86	8	146	39	3	2	54	1.33
1656013--1656053	17	2.6	16	82	17	50	48	2	0	48	1.14
1659013--1659054	2	21.0	2	100	0	84	0	50	0	50	1.00
1662661--1662691	16	2.0	16	93	6	55	45	0	12	41	1.42
1664351--1664380	2	15.0	2	100	0	60	50	50	0	0	1.00
1671936--1671977	15	2.8	15	82	7	50	47	4	42	4	1.45
1678846--1678899	18	2.9	19	80	20	62	48	0	0	51	1.00
1678848--1678932	23	3.9	23	69	20	65	49	0	1	49	1.08
1679436--1679488	21	2.6	19	80	13	61	39	0	0	60	0.97
1681163--1681223	23	2.5	24	84	7	70	62	0	0	37	0.96
1681449--1681473	5	5.0	5	100	0	50	80	0	0	20	0.72
1681917--1681961	21	2.1	21	84	8	56	35	0	4	60	1.17
1682097--1682134	19	2.0	19	85	10	51	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682973--1683031	25	2.3	23	76	18	64	42	1	0	55	1.09
1683521--1683593	13	5.5	14	77	11	82	60	1	0	38	1.06
1683550--1683632	17	4.6	17	69	21	53	46	3	0	49	1.19
1683687--1683725	19	2.1	18	85	4	51	38	2	23	35	1.68
1683787--1683874	20	4.7	20	77	19	75	55	0	0	44	0.99
1683836--1683881	20	2.2	20	85	11	58	56	0	0	43	0.99
1683830--1683881	21	2.5	21	84	9	63	55	0	0	44	0.99
1684823--1684904	31	2.7	30	77	9	94	46	2	0	51	1.14
1685073--1685185	35	3.2	36	75	12	94	62	0	0	35	1.07
1690953--1691025	20	3.7	20	68	15	62	36	0	2	60	1.11
1691205--1691243	18	2.2	18	86	4	53	35	2	15	46	1.60
1691771--1691817	21	2.2	21	88	0	67	23	8	10	57	1.60
1692074--1692106	2	16.5	2	100	0	66	48	0	0	51	1.00
1692852--1692881	2	15.0	2	92	0	51	46	0	0	53	1.00
1693044--1693140	6	16.2	6	69	18	51	41	0	1	57	1.05
1693091--1693165	33	2.3	32	84	8	91	48	0	0	52	1.00
1693771--1693820	19	2.7	18	85	11	66	40	0	2	58	1.10
1693818--1693869	25	2.1	25	85	3	70	53	0	0	46	1.00
1694080--1694118	19	2.0	20	85	14	55	56	0	0	43	0.99
1696078--1696105	2	14.0	2	100	0	56	50	0	0	50	1.00
1697624--1697664	4	10.2	4	94	0	73	0	29	0	70	0.87
1701236--1701262	2	13.5	2	100	0	54	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)
1701993--1702044	22	2.3	22	81	12	61	48	0	5	46	1.26
1702338--1702396	29	2.0	29	81	12	68	50	1	3	44	1.28
1703478--1703505	14	2.0	14	100	0	56	14	7	0	78	0.95
1704079--1704130	22	2.4	21	87	12	70	55	0	1	42	1.10
1704218--1704390	86	2.0	87	86	3	242	45	4	10	39	1.59
1704358--1704413	26	2.0	26	83	13	67	42	5	10	41	1.62
1704799--1704864	23	2.8	23	82	11	62	39	1	6	53	1.35
1705083--1705156	7	11.0	7	69	23	52	54	0	1	44	1.08
1705099--1705152	20	2.7	21	80	8	67	51	0	1	46	1.11
1707307--1707406	49	2.0	49	92	0	164	54	10	2	34	1.45

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