genome.fa.s125.2.7.7.80.10.50.1000.10.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  10  of  18  ( 2131 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)
1587800--1587834	18	1.9	18	88	0	52	77	0	0	22	0.78
1587966--1588008	23	2.0	21	81	9	50	55	0	0	44	0.99
1588619--1588673	14	4.1	14	75	15	53	40	1	3	54	1.28
1589589--1589618	15	1.9	16	93	6	53	60	3	0	36	1.14
1590130--1590197	23	3.0	22	77	10	66	48	1	0	50	1.10
1590167--1590213	13	3.6	13	75	18	53	38	2	0	59	1.09
1590446--1590479	13	2.7	13	90	4	52	47	11	11	29	1.76
1591579--1591612	13	2.6	13	100	0	68	64	0	0	35	0.94
1591979--1592019	22	2.0	19	86	13	55	53	0	0	46	1.00
1592417--1592459	22	2.0	21	81	4	50	51	0	2	46	1.13
1592449--1592497	18	2.8	17	75	6	53	38	0	0	61	0.96
1592858--1592959	19	5.0	21	71	23	60	37	0	0	60	1.10
1592881--1592952	24	3.0	24	73	15	62	34	1	0	63	1.03
1592862--1592959	39	2.4	41	75	20	100	36	1	1	61	1.10
1595185--1595225	9	4.7	9	80	14	50	34	0	0	65	0.93
1595185--1595225	17	2.3	19	76	20	52	34	0	0	65	0.93
1596506--1596604	37	2.7	37	74	21	102	49	0	0	50	1.00
1596531--1596608	34	2.2	37	82	11	101	50	0	0	50	1.00
1596896--1596949	26	2.1	26	86	10	76	48	0	0	51	1.00
1596889--1596941	16	3.4	16	80	17	67	43	0	0	56	0.99
1596896--1596949	25	2.1	25	86	10	74	48	0	0	51	1.00
1597257--1597294	19	2.0	20	90	10	62	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)
1598395--1598458	19	3.5	19	74	20	55	57	0	0	42	0.98
1598367--1598465	25	4.0	25	75	8	80	58	0	0	41	0.98
1598385--1598461	11	6.6	11	68	20	50	57	0	0	42	0.99
1602908--1602959	17	3.1	17	78	13	63	71	0	0	28	0.87
1603024--1603088	26	2.4	28	85	12	84	53	0	0	46	1.00
1603258--1603332	16	4.5	16	69	27	50	45	0	0	54	0.99
1603258--1603323	16	4.1	17	74	25	56	45	0	0	54	0.99
1603256--1603345	32	2.7	33	84	10	112	44	1	0	54	1.07
1603256--1603330	18	4.4	18	69	24	65	46	0	0	53	1.00
1603341--1603400	28	2.1	28	84	6	77	33	1	0	65	1.03
1604702--1604745	14	3.1	14	83	6	61	36	6	0	56	1.26
1605572--1605596	2	12.5	2	100	0	50	52	0	0	48	1.00
1605765--1605794	15	1.9	16	93	6	53	46	0	0	53	1.00
1605763--1605802	21	1.9	21	84	0	53	45	2	0	52	1.14
1607139--1607185	19	2.5	19	96	0	85	31	31	14	21	1.94
1607441--1607481	14	2.9	14	85	0	55	34	0	12	53	1.38
1609088--1609243	76	2.1	73	87	3	222	36	18	4	40	1.71
1609526--1609561	18	1.9	19	88	5	56	58	0	0	41	0.98
1615898--1615933	3	12.0	3	100	0	72	66	0	0	33	0.92
1616550--1616575	2	13.0	2	100	0	52	50	0	0	50	1.00
1622354--1622393	19	2.0	20	85	4	55	67	2	0	30	1.04
1627200--1627331	71	1.9	71	96	0	246	48	17	17	16	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632983--1633101	60	2.0	60	88	3	177	46	1	0	51	1.17
1632982--1633089	30	3.6	30	90	5	173	44	1	0	52	1.18
1633222--1633253	14	2.3	14	94	0	55	25	15	6	53	1.65
1643247--1643283	7	5.3	7	86	0	56	27	43	10	18	1.83
1646293--1646360	23	3.0	22	83	8	75	51	0	1	47	1.09
1648850--1648901	25	2.1	25	85	3	70	61	0	0	38	0.96
1648830--1648944	43	2.8	42	70	12	105	57	1	1	39	1.19
1648844--1648950	14	8.2	14	68	22	72	57	0	0	40	1.11
1648938--1649014	9	9.2	9	78	14	85	41	0	1	57	1.07
1648969--1649018	8	6.1	8	80	11	57	42	0	0	58	0.98
1648965--1649014	17	2.9	17	96	0	91	44	0	0	56	0.99
1648933--1649044	59	1.9	58	83	8	147	41	0	1	55	1.16
1649194--1649253	30	2.0	29	83	3	75	53	1	8	36	1.41
1649878--1649971	33	2.9	31	72	18	84	53	0	1	45	1.07
1649880--1649949	34	2.1	34	81	5	79	52	0	1	45	1.09
1650704--1650754	13	4.0	13	73	14	52	39	0	0	60	0.97
1650704--1650749	24	1.9	24	91	8	76	41	0	0	58	0.98
1650704--1650780	38	2.0	37	82	9	93	38	2	0	58	1.12
1651244--1651301	30	1.9	31	89	3	91	51	0	0	48	1.00
1652174--1652416	124	2.0	124	98	0	468	45	13	11	29	1.79
1652558--1652625	33	2.0	33	83	11	84	47	4	0	48	1.22
1653144--1653177	15	2.2	16	89	5	52	52	8	0	38	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660857--1660900	22	2.0	23	90	4	72	56	0	0	43	0.99
1660867--1660934	30	2.4	27	87	7	91	52	1	0	45	1.09
1660939--1660988	23	2.3	21	86	6	64	46	0	0	54	1.00
1660991--1661034	19	2.4	19	81	11	56	59	0	0	40	0.98
1667345--1667376	2	16.0	2	100	0	64	50	0	50	0	1.00
1670092--1670116	2	12.5	2	100	0	50	52	0	0	48	1.00
1672565--1672706	27	5.5	26	71	18	100	58	0	0	40	1.03
1672620--1672671	14	3.4	14	73	19	50	50	0	0	50	1.00
1672580--1672703	21	5.5	22	68	20	69	56	0	0	42	1.05
1672597--1672697	32	2.8	37	75	18	106	56	0	0	42	1.06
1672619--1672692	16	4.5	17	76	18	68	52	1	0	45	1.09
1672993--1673074	43	1.9	43	80	9	96	62	3	1	32	1.21
1673357--1673387	3	10.3	3	100	0	62	67	0	0	32	0.91
1674963--1674989	12	2.2	12	100	0	54	66	0	0	33	0.92
1674957--1675069	40	2.8	40	79	12	108	50	0	0	49	1.00
1680888--1680931	2	22.5	2	90	4	72	47	0	52	0	1.00
1681159--1681310	79	1.9	79	90	0	241	37	11	3	47	1.57
1681734--1681781	24	2.0	24	88	8	71	58	2	0	39	1.10
1682016--1682060	2	22.5	2	100	0	90	48	0	0	51	1.00
1683529--1683761	125	1.9	126	90	2	380	41	11	5	41	1.65
1697000--1697050	17	2.8	17	80	13	57	70	0	0	29	0.87
1698898--1698929	3	10.7	3	93	0	55	65	3	31	0	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707105--1707151	17	2.7	18	80	6	53	51	0	0	48	1.00
1707145--1707178	13	2.6	13	85	0	50	61	0	0	38	0.96
1707622--1707675	2	28.0	2	92	7	94	51	0	0	48	1.00
1707721--1707747	3	9.0	3	100	0	54	33	0	0	66	0.92
1707805--1707846	20	2.1	20	86	0	57	35	2	4	57	1.33
1707984--1708026	21	2.0	21	90	0	68	53	0	0	46	1.00
1708884--1708939	25	2.2	25	93	0	94	41	7	1	50	1.40
1709548--1709603	6	9.2	6	85	14	71	51	0	0	48	1.00
1709549--1709611	5	11.8	5	81	5	54	47	1	0	50	1.10
1709745--1709781	10	3.9	10	82	10	51	18	0	0	81	0.70
1709745--1709781	18	2.1	18	94	0	65	18	0	0	81	0.70
1712429--1712458	2	15.0	2	100	0	60	50	0	0	50	1.00
1718881--1718959	34	2.2	36	86	4	108	58	0	0	41	0.98
1718881--1718959	11	6.8	11	71	16	61	58	0	0	41	0.98
1720386--1720411	9	2.9	9	100	0	52	0	11	0	88	0.52
1726033--1726086	22	2.4	21	82	14	56	51	1	1	44	1.22
1731255--1731284	6	5.0	6	100	0	60	33	33	16	16	1.92
1732627--1732684	29	2.0	29	100	0	116	51	13	13	20	1.75
1737351--1737384	2	17.0	2	100	0	68	50	0	0	50	1.00
1739061--1739118	18	3.1	19	78	12	57	58	1	0	39	1.08
1739044--1739115	36	1.9	38	83	10	96	54	1	0	44	1.08
1740101--1740137	15	2.4	16	90	4	58	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1740105--1740145	16	2.4	18	76	15	52	41	0	0	58	0.98
1740111--1740157	24	2.0	23	91	8	76	40	0	0	59	0.97
1742669--1742718	21	2.4	21	74	12	57	36	0	0	64	0.94
1742941--1742965	2	12.5	2	100	0	50	52	0	0	48	1.00
1743326--1743358	15	2.1	17	88	11	52	48	6	0	45	1.27
1743497--1743538	11	3.6	11	87	6	57	30	0	2	66	1.04
1743796--1743844	2	24.5	2	95	0	89	46	2	0	51	1.12
1744903--1744942	21	2.0	20	85	5	53	42	10	2	45	1.51
1746127--1746160	3	11.3	3	100	0	68	32	0	0	67	0.91
1746688--1746719	2	16.0	2	93	0	55	46	0	53	0	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18