genome.fa.s329.2.7.7.80.10.50.1000.11.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: Scaffold329
Parameters: 2 7 7 80 10 50 1000
Length:  4121247

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   

This is table  11  of  25  ( 2930 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)
1629058--1629092	11	2.9	12	87	12	54	54	0	0	45	0.99
1629058--1629102	11	3.5	13	85	14	51	55	0	0	44	0.99
1629475--1629536	21	3.0	21	77	13	65	43	0	0	56	0.99
1629417--1629537	26	4.7	27	71	18	98	42	0	0	57	0.99
1630393--1630459	29	2.4	28	80	14	75	41	1	1	55	1.18
1630907--1630977	30	2.3	30	76	14	72	54	2	1	40	1.23
1630999--1631044	18	2.5	19	85	7	67	41	0	0	58	0.98
1634081--1634120	19	2.0	20	85	9	55	37	0	10	52	1.35
1634841--1634889	26	2.0	23	84	11	62	57	0	0	42	0.99
1634841--1634897	20	2.6	24	84	13	70	52	0	0	47	1.00
1636294--1636318	12	2.1	12	100	0	50	32	40	8	20	1.81
1637148--1637427	140	2.0	140	97	0	524	38	18	18	24	1.92
1638719--1638765	24	2.0	24	82	0	58	74	4	10	10	1.20
1638832--1638866	14	2.5	14	90	0	52	57	2	22	17	1.53
1642222--1642253	2	16.5	2	93	6	57	53	0	46	0	1.00
1644409--1644497	19	4.3	20	73	18	67	40	2	0	57	1.11
1644429--1644497	19	3.6	19	81	9	70	39	1	0	59	1.06
1645086--1645134	20	2.5	19	83	6	62	57	0	0	42	0.99
1645377--1645416	13	3.1	13	88	0	53	40	20	0	40	1.52
1646062--1646095	15	2.4	14	86	13	52	85	2	0	11	0.71
1646691--1646728	14	2.9	13	85	11	51	65	0	0	34	0.93
1646731--1646761	15	2.0	16	93	6	55	25	6	0	67	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1646823--1646870	25	1.9	25	91	0	78	50	10	2	37	1.49
1647787--1647852	19	3.5	19	74	19	66	57	1	1	39	1.17
1647913--1647971	18	3.3	18	77	15	61	50	1	0	47	1.11
1648518--1648594	36	2.2	36	82	17	92	57	1	0	41	1.07
1648539--1648580	22	2.0	21	86	9	59	54	2	0	42	1.13
1649318--1649343	12	2.2	12	100	0	52	69	7	0	23	1.14
1650829--1650858	3	10.0	3	92	0	51	0	36	0	63	0.95
1652719--1652749	2	15.5	2	100	0	62	51	0	0	48	1.00
1655797--1655836	22	1.9	22	85	10	57	42	5	0	52	1.23
1655794--1655840	22	2.3	20	77	19	53	44	4	0	51	1.21
1655823--1655873	27	1.9	26	84	11	68	54	1	0	43	1.11
1655823--1655865	15	3.1	14	80	19	54	53	2	0	44	1.13
1656267--1656334	20	3.3	20	70	2	64	51	0	0	48	1.00
1656279--1656337	5	12.0	5	71	10	50	57	0	0	42	0.98
1659288--1659398	51	2.2	51	85	6	145	28	14	23	33	1.94
1659826--1659873	20	2.3	20	82	3	60	47	8	16	27	1.75
1659930--1660041	51	2.2	51	83	9	142	29	14	13	42	1.83
1662347--1662731	79	4.9	79	82	3	377	27	25	12	34	1.92
1662687--1662978	125	2.3	124	82	2	368	31	27	11	29	1.91
1670368--1670448	25	3.2	25	63	16	67	46	7	17	28	1.74
1674822--1674856	18	2.1	16	89	10	52	54	0	2	42	1.15
1675717--1675791	25	3.3	25	62	27	67	36	4	2	57	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1675696--1675829	42	3.2	41	93	6	209	37	3	2	56	1.29
1675696--1675807	42	2.7	42	100	0	224	40	4	1	53	1.31
1675919--1675959	18	2.3	18	91	0	64	24	7	14	53	1.66
1678391--1678443	24	2.2	24	79	0	61	54	5	1	37	1.35
1678976--1679005	10	3.0	10	95	0	51	0	13	0	86	0.57
1678977--1679011	16	2.1	17	89	5	54	0	17	0	82	0.66
1680257--1680795	32	16.8	32	94	1	911	16	18	33	30	1.94
1680778--1681628	27	31.1	27	92	2	1405	27	14	35	22	1.93
1680778--1681628	246	3.5	245	94	1	1422	27	14	35	22	1.93
1680778--1681625	219	3.9	218	96	0	1500	27	14	35	22	1.93
1682645--1682674	15	2.0	15	100	0	60	0	0	13	86	0.57
1689433--1689462	10	3.0	10	95	0	51	0	13	0	86	0.57
1689434--1689468	16	2.1	17	89	5	54	0	17	0	82	0.66
1692631--1692670	18	2.2	18	86	0	53	52	0	5	42	1.23
1692638--1692695	30	1.9	30	82	6	73	48	0	5	46	1.24
1693872--1693916	21	2.2	20	84	11	56	48	6	2	42	1.41
1693894--1693954	30	2.0	30	84	12	81	52	4	1	40	1.33
1693912--1693956	18	2.5	18	82	7	56	57	2	0	40	1.11
1694053--1694077	3	8.3	3	100	0	50	0	36	0	64	0.94
1697234--1697258	2	12.5	2	100	0	50	48	0	52	0	1.00
1697729--1697781	3	17.7	3	92	0	88	0	1	35	62	1.06
1698050--1698076	3	9.0	3	100	0	54	0	0	33	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1700574--1700631	28	2.1	28	83	0	71	53	1	0	44	1.10
1702477--1702543	30	2.2	30	84	7	82	43	5	2	47	1.43
1702566--1702638	29	2.5	30	84	2	94	54	1	5	38	1.32
1703959--1704020	21	3.0	21	77	13	65	56	0	6	37	1.25
1704117--1704180	30	2.1	32	85	5	87	57	1	1	39	1.17
1704120--1704211	30	3.1	28	75	14	80	54	2	1	42	1.19
1706358--1706393	5	6.8	5	90	9	54	80	2	0	16	0.83
1706358--1706393	11	3.4	10	88	11	54	80	2	0	16	0.83
1706356--1706394	10	3.5	11	89	10	62	79	2	0	17	0.84
1706888--1706929	22	2.0	22	90	4	68	50	0	0	50	1.00
1707352--1707417	31	2.1	32	85	2	89	50	0	0	50	1.00
1712946--1712984	10	3.8	10	83	6	51	51	0	2	46	1.14
1713524--1713592	26	2.6	26	86	2	93	55	0	2	42	1.15
1714112--1714197	25	3.6	24	84	12	124	40	38	0	20	1.53
1714112--1714186	22	3.3	22	87	9	114	41	38	0	20	1.52
1714111--1714253	56	2.9	47	80	17	187	39	38	0	21	1.54
1714153--1714220	34	2.0	34	94	0	118	39	39	0	20	1.53
1714137--1714269	56	2.4	56	98	1	257	38	39	0	21	1.54
1714137--1714304	9	15.3	10	68	27	69	40	38	0	20	1.53
1714187--1714242	22	2.5	22	94	0	94	39	39	0	21	1.54
1714209--1714295	34	2.6	34	94	0	156	41	39	0	19	1.52
1716133--1716158	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1720213--1720243	15	2.1	15	93	0	53	48	16	22	12	1.80
1722300--1722337	13	2.9	13	96	0	67	34	18	15	31	1.92
1722449--1722494	21	2.2	20	81	11	58	32	19	4	43	1.71
1724906--1724931	13	2.0	13	100	0	52	38	15	15	30	1.88
1728960--1729015	22	2.5	22	94	0	94	37	41	1	19	1.62
1728931--1729042	56	2.0	56	94	0	197	38	39	0	21	1.60
1728982--1729068	34	2.6	34	92	0	147	40	39	1	19	1.59
1728957--1729077	9	11.3	10	68	25	54	40	38	0	19	1.58
1729374--1729421	26	1.9	24	83	8	60	39	2	6	52	1.39
1731122--1731146	13	1.9	13	100	0	50	56	0	0	44	0.99
1731083--1731158	16	4.8	16	76	10	77	57	1	0	40	1.07
1732013--1732066	22	2.4	22	76	14	56	57	3	3	35	1.34
1736669--1736699	16	1.9	16	93	0	53	9	22	29	38	1.86
1736729--1736760	16	2.0	16	93	0	55	9	18	28	43	1.81
1741997--1742039	11	3.8	12	84	3	54	83	2	13	0	0.74
1742411--1742449	2	19.5	2	94	0	69	48	0	0	51	1.00
1743572--1743762	22	8.6	22	71	10	102	48	10	5	35	1.61
1743644--1743761	43	2.6	45	82	9	125	50	9	4	35	1.54
1743687--1743761	24	3.3	22	80	10	89	53	10	4	32	1.54
1743972--1744005	16	2.1	16	94	0	59	44	0	2	52	1.16
1744581--1744639	28	2.1	28	81	6	66	55	10	1	32	1.43
1751481--1751505	12	2.1	12	100	0	50	32	16	8	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1757770--1757803	13	2.7	12	86	13	50	88	11	0	0	0.52
1757772--1757802	8	3.9	8	91	0	53	87	12	0	0	0.55
1761749--1761864	51	2.3	51	86	0	151	29	12	26	31	1.92
1761717--1761995	130	2.1	131	84	3	375	30	13	27	28	1.94
1761879--1761999	51	2.4	51	87	5	165	32	13	25	28	1.93
1761917--1762043	51	2.5	51	85	5	159	35	11	25	27	1.90
1764399--1764453	20	2.8	20	100	0	110	40	14	20	25	1.90
1764440--1764465	13	2.0	13	100	0	52	38	15	15	30	1.88
1764503--1764560	13	4.0	13	74	23	53	34	15	15	34	1.89
1764517--1764602	19	4.7	19	72	20	76	34	16	12	36	1.87

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