genome.fa.s133.2.7.7.80.10.50.1000.12.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: Scaffold133
Parameters: 2 7 7 80 10 50 1000
Length:  2564099

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

This is table  12  of  17  ( 1989 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)
1573206--1573251	2	23.0	2	100	0	92	50	0	0	50	1.00
1575715--1575763	19	2.6	20	78	12	59	61	0	4	34	1.15
1579921--1579958	19	2.2	17	86	13	51	42	5	10	42	1.62
1582823--1582864	21	2.0	21	86	9	59	42	0	2	54	1.13
1584184--1584255	20	3.5	20	72	14	65	43	2	1	52	1.24
1584428--1584471	3	14.7	3	80	0	52	31	6	2	59	1.36
1584430--1584471	12	3.5	12	87	6	59	33	7	2	57	1.39
1590132--1590161	15	2.0	15	93	0	51	0	16	0	83	0.65
1590394--1590427	17	1.9	18	88	5	52	32	0	0	67	0.91
1590390--1590440	21	2.5	21	78	9	52	35	0	1	62	1.06
1590677--1590723	2	24.0	2	82	4	60	53	2	0	44	1.12
1591258--1591286	7	4.3	7	95	4	51	0	13	10	75	1.04
1591928--1591971	16	2.6	18	86	13	67	52	0	0	47	1.00
1593802--1593828	2	13.5	2	100	0	54	0	48	0	51	1.00
1594067--1594123	25	2.2	25	84	12	71	52	0	0	47	1.00
1597920--1597944	13	1.9	13	100	0	50	24	0	0	76	0.80
1599871--1599902	3	10.7	3	93	0	55	62	0	37	0	0.95
1600221--1600283	25	2.4	26	81	10	74	53	0	3	42	1.16
1603010--1603208	5	40.4	5	64	22	66	58	0	1	39	1.11
1603012--1603101	33	2.6	35	77	15	89	62	0	2	35	1.08
1603082--1603172	33	2.6	34	84	10	114	56	0	0	43	0.99
1604817--1604858	17	2.4	18	76	15	52	33	0	7	59	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1605556--1605581	2	13.0	2	100	0	52	50	0	0	50	1.00
1606049--1606084	19	2.0	17	89	10	54	16	0	5	77	0.94
1609791--1609815	3	8.3	3	100	0	50	36	0	0	64	0.94
1610389--1610425	11	3.1	13	88	11	53	27	0	0	72	0.84
1610521--1610553	10	3.3	10	100	0	66	51	0	0	48	1.00
1610514--1610563	20	2.5	20	80	3	64	58	0	0	42	0.98
1613906--1613967	8	7.4	8	80	14	63	77	0	19	3	0.90
1613909--1613967	24	2.4	24	88	8	84	77	0	18	3	0.90
1613906--1613967	17	3.7	16	79	14	63	77	0	19	3	0.90
1613909--1613967	4	14.8	4	72	13	50	77	0	18	3	0.90
1617813--1617842	15	2.0	15	100	0	60	33	20	6	40	1.78
1623929--1623982	27	2.0	28	85	10	76	25	5	0	68	1.11
1624172--1624230	20	3.1	19	80	9	59	10	13	0	76	1.02
1624514--1624559	24	2.0	24	86	4	67	47	0	2	50	1.13
1626896--1626962	33	2.0	33	88	0	98	34	11	13	40	1.81
1626916--1626940	13	1.9	13	100	0	50	36	16	16	32	1.90
1627004--1627028	13	1.9	13	100	0	50	32	16	16	36	1.90
1627017--1627165	52	2.9	51	90	4	235	33	19	16	30	1.94
1628115--1628201	43	2.0	43	100	0	174	35	29	16	18	1.92
1631248--1631326	32	2.4	32	79	12	88	39	2	2	55	1.27
1634123--1634165	2	22.0	2	95	4	79	48	0	0	51	1.00
1636805--1636844	8	5.0	8	87	0	53	37	25	10	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638443--1638575	44	3.1	44	86	6	200	27	7	8	56	1.56
1638443--1638562	41	2.8	42	89	3	179	30	6	8	55	1.55
1639715--1639831	57	2.1	58	93	3	202	23	10	18	47	1.79
1641180--1641213	18	1.9	18	88	5	52	47	8	0	44	1.34
1641399--1641438	16	2.5	17	84	12	57	72	0	0	27	0.85
1641399--1641444	16	2.9	15	83	6	56	71	2	0	26	0.97
1645587--1645631	16	2.9	15	83	6	54	37	24	17	20	1.93
1646451--1646515	16	4.1	16	83	0	85	40	33	15	10	1.82
1646659--1646691	17	2.0	17	88	5	50	51	0	0	48	1.00
1646661--1646784	32	3.8	31	71	23	80	46	0	1	51	1.10
1646656--1646727	29	2.6	29	82	4	85	48	0	0	51	1.00
1646697--1646863	38	4.7	37	71	13	127	43	1	1	53	1.18
1646694--1646801	37	2.8	39	78	9	116	43	0	1	54	1.11
1646694--1646858	37	4.7	33	71	20	86	42	1	1	54	1.18
1648493--1648568	19	3.9	19	70	15	57	47	2	1	48	1.24
1648727--1648755	9	3.3	9	95	4	51	0	6	0	93	0.36
1648726--1648757	15	2.1	15	94	0	55	0	12	0	87	0.54
1649317--1649357	21	1.9	22	85	14	59	53	2	0	43	1.13
1649317--1649583	111	2.5	110	84	7	350	52	1	1	43	1.21
1649532--1649587	25	2.2	25	84	9	69	66	1	1	30	1.12
1649318--1649583	104	2.4	110	83	6	274	53	1	1	43	1.21
1649898--1650257	124	2.9	123	85	8	448	42	2	1	53	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1650208--1650266	26	2.3	27	85	5	77	45	0	0	54	0.99
1650208--1650273	26	2.6	25	79	11	73	46	0	0	53	1.00
1650884--1650933	22	2.2	24	85	7	68	68	6	0	26	1.13
1651025--1651090	10	6.0	11	74	22	59	65	1	1	31	1.11
1651010--1651068	20	2.8	20	79	5	64	66	1	1	30	1.12
1651011--1651160	19	7.8	19	66	19	62	61	0	3	34	1.17
1651075--1651125	15	3.3	15	80	20	52	52	0	7	39	1.30
1651196--1651240	9	4.8	9	86	10	63	2	13	0	84	0.72
1651203--1651263	20	3.0	20	79	13	72	1	21	0	77	0.86
1651190--1651241	25	2.1	25	86	13	72	1	17	0	80	0.80
1651179--1651259	29	2.8	30	77	7	96	2	20	0	76	0.90
1652626--1652665	14	2.9	14	84	0	62	75	7	0	17	1.03
1654598--1654635	16	2.4	16	86	0	58	68	0	15	15	1.22
1659655--1659696	20	2.2	20	91	4	68	54	0	0	45	0.99
1660131--1660180	16	3.1	16	88	2	64	44	2	2	52	1.24
1664834--1664886	20	2.6	21	88	5	83	32	13	13	41	1.82
1664965--1665020	29	1.9	30	82	10	71	57	1	3	37	1.27
1665016--1665054	21	1.9	21	89	5	62	48	2	10	38	1.51
1665107--1665160	17	3.2	17	72	15	58	50	3	11	35	1.56
1665102--1665149	16	2.9	17	72	15	55	54	2	12	31	1.49
1672339--1672370	16	2.0	16	100	0	64	31	12	31	25	1.92
1673669--1673693	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673648--1673713	33	2.0	33	88	5	98	34	16	13	34	1.88
1675427--1675451	13	1.9	13	100	0	50	32	16	16	36	1.90
1675406--1675467	33	1.9	32	87	9	90	29	12	14	43	1.83
1676048--1676140	32	2.7	34	81	16	113	29	11	23	35	1.90
1676787--1676862	36	2.1	36	100	0	152	27	14	13	44	1.82
1680705--1680984	140	2.0	140	98	0	542	38	14	19	27	1.90
1686779--1686805	13	2.1	13	100	0	54	40	14	14	29	1.86
1686780--1686855	33	2.3	33	88	0	116	43	13	14	28	1.83
1691873--1691910	13	2.9	13	100	0	76	31	15	15	36	1.90
1693817--1693842	13	2.0	13	100	0	52	30	23	15	30	1.95
1693912--1693942	16	2.0	15	93	6	53	45	12	22	19	1.84
1694774--1694825	21	2.5	21	96	0	95	34	23	3	38	1.73
1695659--1695683	13	1.9	13	100	0	50	32	16	16	36	1.90
1697217--1697384	84	2.0	83	81	7	198	25	19	3	51	1.62
1699451--1699476	13	2.0	13	100	0	52	30	23	15	30	1.95
1700224--1700297	17	4.3	17	67	16	53	58	4	1	36	1.26
1700213--1700323	52	2.1	52	98	0	213	55	6	1	36	1.36
1704369--1704408	16	2.6	16	84	4	55	32	0	2	65	1.06
1705889--1705920	12	2.7	12	95	0	55	18	37	25	18	1.94
1705919--1705971	27	2.0	27	92	0	88	43	7	13	35	1.72
1706857--1706882	13	2.0	13	100	0	52	30	15	15	38	1.88
1707589--1707632	21	2.1	21	83	8	54	25	31	4	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709436--1709461	13	2.0	13	100	0	52	38	15	15	30	1.88
1713369--1713413	21	2.1	21	84	8	56	22	20	4	53	1.63
1715632--1715657	13	2.0	13	100	0	52	30	15	15	38	1.88
1720486--1720517	12	2.7	12	95	0	55	18	37	25	18	1.94
1726860--1726898	19	2.2	18	86	9	53	53	5	25	15	1.62
1727112--1727188	24	3.2	24	60	10	57	50	9	15	24	1.73
1727102--1727201	49	2.0	49	100	0	200	47	11	18	24	1.80
1729487--1729529	20	2.1	21	87	12	63	37	9	6	46	1.63
1737432--1737474	10	4.2	10	80	13	52	2	4	11	81	0.93
1738402--1738618	108	2.0	108	95	0	389	45	17	15	22	1.85

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