genome.fa.s117.2.7.7.80.10.50.1000.10.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

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  ( 2101 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)
1634509--1634555	18	2.6	19	83	6	62	36	0	0	63	0.94
1637050--1637165	38	3.1	38	97	2	225	45	18	10	25	1.81
1637050--1637165	37	3.1	37	98	1	223	45	18	10	25	1.81
1639479--1639511	3	11.0	3	93	0	57	33	3	0	63	1.10
1642723--1642783	31	2.0	32	84	12	83	39	6	1	52	1.37
1642843--1642897	19	2.9	18	81	13	67	29	0	1	69	0.99
1643285--1643346	24	2.6	24	78	14	67	61	6	0	32	1.21
1644863--1644896	3	11.3	3	93	0	59	35	29	0	35	1.58
1644895--1644932	3	12.7	3	100	0	76	65	0	0	34	0.93
1645093--1645143	22	2.3	23	86	10	70	64	3	3	27	1.28
1646484--1646571	37	2.4	37	84	3	106	50	2	1	46	1.21
1646499--1646553	25	2.1	27	83	6	69	45	1	1	50	1.22
1646513--1646588	37	2.1	37	89	0	116	43	1	3	51	1.28
1653994--1654018	2	12.5	2	100	0	50	48	0	0	52	1.00
1654271--1654315	2	22.5	2	100	0	90	51	0	0	48	1.00
1655089--1655158	19	3.6	20	78	16	67	58	1	1	38	1.16
1655399--1655426	2	14.0	2	100	0	56	0	50	0	50	1.00
1655426--1655454	2	14.5	2	100	0	58	48	0	0	51	1.00
1657782--1657815	2	17.0	2	100	0	68	50	0	0	50	1.00
1658556--1658635	42	1.9	42	86	0	115	35	20	12	32	1.90
1666840--1666880	21	2.0	21	85	4	57	41	7	4	46	1.53
1667581--1667770	19	10.2	19	63	22	73	60	2	0	36	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667584--1667644	25	2.5	24	74	23	63	60	0	0	39	0.97
1667583--1667770	28	6.8	28	69	20	110	60	2	0	36	1.11
1667705--1667766	13	5.1	13	72	20	53	66	3	0	30	1.08
1667587--1667770	37	5.0	37	72	14	146	60	2	0	36	1.11
1667710--1667764	24	2.3	25	81	15	71	67	3	0	29	1.08
1667583--1667771	18	10.2	19	70	21	134	60	2	0	37	1.11
1669539--1669574	2	18.5	2	94	5	65	50	0	0	50	1.00
1673826--1673855	15	2.0	15	93	0	51	6	23	3	66	1.30
1681855--1681957	50	2.1	50	80	12	115	52	0	3	42	1.26
1682047--1682088	20	2.0	23	86	13	63	40	0	0	59	0.97
1682084--1682159	40	2.1	38	81	16	90	51	0	0	48	1.00
1682099--1682159	20	3.0	20	76	13	72	47	0	0	52	1.00
1682099--1682162	10	6.3	10	73	21	53	48	0	0	51	1.00
1689739--1689763	3	8.3	3	100	0	50	36	0	0	64	0.94
1689965--1690034	16	4.6	16	66	28	53	58	0	0	41	0.98
1689963--1690025	18	3.5	17	79	16	65	58	0	0	41	0.98
1689983--1690053	29	2.4	30	81	11	85	56	1	1	40	1.17
1690794--1690898	35	3.0	35	79	6	97	40	2	1	54	1.26
1691794--1691838	20	2.3	19	81	7	54	6	13	0	80	0.91
1692295--1692389	18	5.2	17	67	22	50	45	0	0	54	0.99
1692365--1692390	6	4.3	6	100	0	52	46	0	0	53	1.00
1692366--1692422	29	1.9	30	82	10	73	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1692322--1692412	40	2.3	40	77	17	93	48	0	0	51	1.00
1694219--1694251	17	1.9	17	93	0	57	51	0	6	42	1.26
1694220--1694270	17	2.9	18	83	11	54	52	0	1	45	1.12
1694242--1694281	17	2.3	17	86	4	53	50	0	0	50	1.00
1696344--1696378	17	2.1	17	100	0	70	22	17	28	31	1.96
1698484--1698517	16	2.1	16	94	0	59	47	8	11	32	1.71
1700793--1700836	17	2.6	18	82	7	56	47	2	0	50	1.13
1700909--1700950	14	2.9	15	79	10	52	52	0	2	45	1.13
1701729--1701781	22	2.4	22	85	14	74	45	0	1	52	1.11
1701726--1701776	21	2.5	20	78	15	59	47	0	1	50	1.12
1701746--1701810	23	3.0	23	78	13	57	50	0	1	47	1.10
1701732--1701785	23	2.4	24	85	11	71	44	0	1	53	1.11
1709699--1709728	2	15.0	2	100	0	60	0	50	0	50	1.00
1716176--1716254	41	1.9	41	94	0	140	25	13	25	35	1.93
1717723--1717754	14	2.3	14	100	0	64	34	21	18	25	1.96
1719697--1719739	2	22.0	2	90	4	70	46	0	2	51	1.13
1721570--1721603	17	2.1	16	88	5	50	50	14	0	35	1.44
1722061--1722095	13	2.6	14	86	9	54	34	0	0	65	0.93
1722671--1722696	2	13.0	2	100	0	52	50	0	0	50	1.00
1722816--1722874	8	7.2	8	75	17	59	28	1	0	69	0.98
1722818--1722876	15	3.8	16	75	20	54	28	1	0	69	0.98
1722808--1722879	33	2.2	33	82	7	85	29	1	0	69	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722808--1722881	27	2.8	27	82	10	73	29	1	0	68	0.97
1723575--1723609	18	1.9	18	88	0	52	57	0	2	40	1.14
1723572--1723608	13	3.0	13	80	11	51	56	0	2	40	1.13
1732742--1732784	22	2.0	22	90	4	70	30	13	13	41	1.84
1735689--1735720	2	16.0	2	100	0	64	50	0	0	50	1.00
1736297--1736370	9	8.2	9	76	16	73	56	0	1	41	1.07
1736292--1736340	19	2.8	17	82	11	62	59	0	0	40	0.98
1736297--1736340	19	2.5	17	92	7	70	56	0	0	43	0.99
1740305--1740504	37	5.2	38	81	8	219	32	9	17	42	1.80
1740524--1740836	40	8.0	40	69	14	129	35	10	12	41	1.77
1740416--1740600	96	2.0	92	85	8	248	32	10	16	40	1.83
1740563--1740802	38	6.2	36	71	12	124	36	10	12	40	1.77
1741969--1741998	1	30.0	1	93	0	51	0	3	0	96	0.21
1741967--1741998	12	2.8	12	95	4	57	0	6	0	93	0.34
1752055--1752096	21	2.0	21	81	9	50	42	0	4	52	1.22
1752123--1752180	26	2.2	26	76	11	66	56	1	0	41	1.09
1752127--1752176	15	3.3	15	83	5	73	52	2	0	46	1.12
1752128--1752193	31	2.3	28	80	14	73	50	1	0	48	1.10
1754169--1754234	12	5.8	12	73	18	52	60	0	0	39	0.97
1754804--1754829	10	2.6	10	100	0	52	34	0	0	65	0.93
1754813--1754854	15	2.8	15	85	7	59	35	0	0	64	0.94
1755788--1755830	19	2.3	19	84	8	52	46	2	2	48	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1757685--1757762	39	2.0	39	80	9	88	48	3	6	41	1.47
1758850--1758882	2	16.5	2	93	0	57	45	3	0	51	1.16
1759170--1759216	2	23.5	2	95	0	85	46	0	53	0	1.00
1759218--1759259	5	8.4	5	94	5	68	78	2	0	19	0.86
1759295--1759326	7	4.6	7	96	0	55	84	0	15	0	0.63
1759894--1759932	18	2.2	17	86	4	51	12	5	0	82	0.83
1762763--1762804	23	1.9	22	85	9	59	16	14	9	59	1.60
1772695--1772827	40	3.3	38	76	17	101	45	1	1	51	1.19
1773308--1773335	2	14.0	2	100	0	56	50	0	0	50	1.00
1791635--1791711	28	2.6	29	80	12	77	36	2	0	61	1.10
1791691--1791751	29	2.0	30	81	12	72	34	1	0	63	1.04
1791842--1791988	76	1.9	76	87	6	219	36	2	2	59	1.23
1791852--1792096	135	1.8	135	85	8	347	37	2	1	57	1.23
1791927--1792050	63	2.1	58	87	7	176	38	4	0	56	1.24
1792061--1792105	23	1.9	24	95	4	83	40	0	0	60	0.97
1792061--1792115	24	2.3	23	87	3	65	40	1	3	54	1.28
1793606--1793652	13	3.6	13	85	5	60	57	0	2	40	1.11
1793732--1793784	26	2.0	26	92	0	88	28	30	9	32	1.88
1797191--1797215	1	25.0	1	100	0	50	100	0	0	0	0.00
1799729--1799768	20	2.1	18	86	9	53	15	7	0	77	0.98
1800496--1800521	2	13.0	2	100	0	52	50	0	0	50	1.00
1806329--1806354	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808320--1809087	53	15.2	52	76	12	669	53	4	2	40	1.33
1808452--1809076	50	12.3	51	77	12	531	53	4	2	39	1.33
1808328--1809069	148	4.9	143	73	18	464	53	4	2	40	1.33
1808320--1808995	201	3.3	195	80	11	681	52	4	2	40	1.33
1808691--1808767	22	3.0	28	67	21	85	55	3	0	40	1.18
1808403--1809076	300	2.2	301	80	10	729	54	4	2	39	1.33
1808971--1809040	23	3.0	23	68	15	63	54	5	0	40	1.24
1808318--1809075	353	2.1	346	80	9	856	53	4	1	39	1.32
1809302--1809349	23	2.1	23	88	3	71	37	16	8	37	1.79
1809326--1809388	22	2.7	24	73	9	67	39	12	4	42	1.64

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