genome.fa.s172.2.7.7.80.10.50.1000.9.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: Scaffold172
Parameters: 2 7 7 80 10 50 1000
Length:  1975206

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  9  of  11  ( 1205 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)
1602069--1602093	13	1.9	13	100	0	50	32	16	16	36	1.90
1602050--1602112	32	2.0	32	96	0	117	36	15	12	34	1.86
1602170--1602225	21	2.7	21	97	0	103	37	19	10	32	1.86
1602231--1602261	1	31.0	1	100	0	62	0	0	0	100	0.00
1604313--1604531	58	3.9	56	74	11	209	26	20	19	33	1.96
1604335--1604554	108	2.0	109	92	2	363	24	22	17	35	1.95
1609417--1609489	28	2.6	28	82	6	87	58	6	20	13	1.58
1617203--1617506	151	2.0	151	95	0	545	26	12	29	31	1.93
1625822--1625954	49	2.7	49	89	4	189	24	18	17	40	1.91
1628470--1628623	79	1.9	81	88	2	231	27	27	12	31	1.93
1628505--1628739	129	1.8	129	81	1	292	27	25	14	32	1.94
1628599--1628901	79	3.8	78	80	6	245	26	27	14	31	1.95
1633740--1633813	20	3.7	20	81	3	103	35	13	20	31	1.91
1633758--1633833	21	3.7	21	82	3	109	40	11	18	28	1.86
1633740--1633833	41	2.3	41	100	0	188	38	12	19	29	1.89
1633872--1633897	13	2.0	13	100	0	52	38	15	15	30	1.88
1633854--1633917	32	2.0	33	90	3	103	42	15	14	28	1.86
1634355--1634421	37	1.9	35	88	11	102	32	11	25	29	1.92
1635939--1636112	84	2.1	84	79	8	185	54	4	17	24	1.60
1639376--1639449	20	3.7	20	81	3	103	35	13	20	31	1.91
1639394--1639469	21	3.7	21	82	3	109	40	11	18	28	1.86
1639376--1639469	41	2.3	41	100	0	188	38	12	19	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639508--1639533	13	2.0	13	100	0	52	38	15	15	30	1.88
1639490--1639553	32	2.0	33	90	3	103	42	15	14	28	1.86
1639991--1640057	37	1.9	35	88	11	102	32	11	25	29	1.92
1648837--1648969	49	2.7	49	90	4	198	24	18	16	40	1.90
1653900--1654032	49	2.7	49	87	4	180	24	17	17	41	1.90
1656327--1656483	79	2.0	81	87	2	228	27	25	14	32	1.95
1656459--1656756	79	3.8	78	80	6	226	27	25	14	32	1.94
1670002--1670134	49	2.7	49	89	4	180	25	17	16	40	1.90
1672430--1672586	79	2.0	81	87	2	228	27	26	14	31	1.95
1672562--1672859	79	3.8	78	80	6	226	27	26	14	32	1.94
1685251--1685300	15	3.3	15	86	8	57	86	2	8	4	0.78
1685250--1685300	16	3.2	16	83	2	59	86	1	7	3	0.77
1686257--1686451	96	2.0	96	83	8	241	24	31	17	26	1.97
1686394--1686999	61	10.1	61	82	8	724	25	26	19	28	1.99
1686394--1686994	178	3.4	177	87	4	809	26	26	19	27	1.99
1686373--1686999	239	2.6	232	85	6	796	26	26	19	27	1.99
1686969--1687231	42	6.5	39	75	13	178	19	26	14	39	1.90
1687028--1687268	41	5.7	41	75	11	191	21	26	11	41	1.87
1687028--1687251	83	2.6	87	80	10	248	19	26	11	42	1.85
1689692--1689813	51	2.4	51	85	9	178	29	29	12	28	1.93
1689794--1689863	28	2.5	30	77	13	85	24	27	20	28	1.99
1689743--1689944	107	1.9	107	82	2	253	26	26	16	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1689819--1690158	79	4.3	77	76	6	234	25	25	16	32	1.96
1691428--1691959	167	3.2	167	84	3	689	42	14	9	32	1.78
1693463--1693502	3	13.3	3	89	0	62	40	0	30	30	1.57
1697489--1697574	24	3.8	24	73	17	85	43	0	43	13	1.44
1697510--1697570	9	7.1	9	70	10	56	40	0	45	13	1.43
1697480--1697598	42	2.8	42	89	0	166	43	0	44	10	1.45
1697490--1697565	12	6.9	11	77	15	61	39	0	47	13	1.42
1704019--1704252	80	2.9	78	77	6	222	27	25	16	30	1.97
1705537--1705595	19	3.0	20	85	7	86	28	16	15	38	1.89
1705621--1705676	20	2.8	20	80	0	76	37	14	19	28	1.91
1710224--1710294	28	2.5	29	76	15	85	57	9	22	9	1.60
1719851--1720923	537	2.0	536	91	2	1746	29	13	25	31	1.94
1720980--1721020	22	2.0	22	85	9	59	12	19	9	58	1.61
1721440--1721512	12	6.6	11	72	21	55	39	1	45	13	1.52
1721439--1721548	42	2.6	42	85	0	148	41	2	42	12	1.57
1729683--1730001	162	2.0	162	93	2	552	22	20	12	45	1.84
1730769--1730836	30	2.2	30	82	7	84	48	0	41	10	1.37
1730790--1730860	18	3.6	18	72	20	61	45	0	42	12	1.42
1730781--1730875	42	2.3	42	92	0	154	43	0	44	12	1.42
1730838--1730881	18	2.4	18	81	7	54	43	0	47	9	1.35
1737287--1737691	198	2.0	199	94	0	713	27	23	12	36	1.91
1739419--1739535	58	2.0	58	84	0	153	28	23	18	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1756156--1756938	409	1.9	408	87	3	1162	37	19	14	27	1.91
1757626--1757650	11	2.3	11	100	0	50	24	28	8	40	1.83
1761389--1761454	20	3.3	19	79	8	69	40	18	12	28	1.86
1763888--1764027	42	3.3	42	82	5	158	45	2	43	8	1.49
1763898--1763971	12	6.7	12	74	22	56	39	4	45	10	1.58
1763940--1763990	24	2.2	22	82	6	57	47	0	41	11	1.40
1769291--1769323	3	11.0	3	93	0	57	33	3	30	33	1.73
1770113--1770217	45	2.3	45	98	0	201	40	17	18	23	1.90
1774494--1774566	20	3.7	19	77	15	69	41	10	12	35	1.78
1777104--1777161	21	2.8	21	84	12	84	43	17	8	31	1.79
1777104--1777158	20	2.7	20	88	8	76	43	18	9	29	1.80
1778199--1778239	20	2.0	20	100	0	82	24	14	21	39	1.91
1778294--1778345	20	2.7	20	87	3	70	36	15	17	30	1.91
1783657--1783742	43	2.0	43	95	0	154	36	19	16	27	1.93
1786054--1786088	15	2.3	15	95	0	61	28	28	0	42	1.56
1787622--1787739	52	2.3	52	95	0	209	32	11	20	36	1.88
1787747--1787776	13	2.3	13	94	0	51	40	13	13	33	1.83
1787724--1787793	33	2.1	33	89	0	104	37	15	15	31	1.89
1787874--1787937	20	3.5	20	72	27	79	39	14	18	28	1.90
1787866--1787940	33	2.3	33	100	0	150	40	16	17	26	1.90
1789222--1789249	13	2.2	13	100	0	56	39	0	28	32	1.57
1793695--1793738	22	2.0	22	95	4	81	13	6	18	61	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1794968--1795008	21	2.0	21	85	9	57	41	12	7	39	1.70
1795048--1795118	20	3.6	19	77	7	70	40	16	12	29	1.86
1795088--1795224	53	2.6	53	95	3	240	37	17	17	27	1.92
1795249--1795279	10	3.1	10	90	0	53	22	29	6	41	1.78
1795289--1795373	33	2.6	34	94	5	156	30	22	9	37	1.86
1795367--1795405	13	3.0	13	92	0	69	30	15	17	35	1.91
1803079--1803139	28	2.2	28	82	5	70	62	8	16	13	1.53
1803197--1803228	10	3.1	10	95	4	55	0	12	0	87	0.54
1803199--1803229	12	2.7	12	95	5	55	0	9	0	90	0.46
1803474--1805705	38	56.9	38	64	14	353	45	15	22	16	1.85
1803460--1805339	79	23.7	79	78	6	1480	45	15	23	16	1.85
1804138--1804264	63	2.0	64	84	4	168	39	15	25	18	1.91
1804259--1804316	27	2.1	27	90	0	89	55	22	8	13	1.66
1804201--1804394	106	1.8	105	83	1	253	47	16	20	15	1.83
1804286--1805336	236	4.4	236	83	3	1166	45	15	22	16	1.85
1803460--1805337	157	11.8	158	77	6	1408	45	15	23	16	1.85
1805336--1805620	74	3.8	74	77	12	249	46	16	20	16	1.84
1805393--1805705	79	4.0	76	77	10	251	46	15	21	16	1.84
1805336--1805704	155	2.4	156	79	12	372	46	16	20	16	1.84
1806070--1806665	89	6.7	89	79	5	483	30	15	26	28	1.96
1806070--1806642	267	2.2	266	80	2	614	29	15	25	28	1.96
1808375--1808431	30	1.9	30	86	13	82	5	10	5	78	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808387--1808431	23	2.0	23	81	0	54	6	6	6	80	1.04
1811264--1811363	50	2.0	50	92	3	166	43	8	16	33	1.77
1812244--1812268	13	1.9	13	100	0	50	32	16	16	36	1.90
1815741--1815778	20	1.9	20	88	0	58	42	0	28	28	1.56
1822225--1822298	20	3.7	20	78	7	87	29	16	16	37	1.90
1836252--1836305	28	1.9	28	100	0	108	20	18	11	50	1.77
1836359--1836389	15	2.1	15	100	0	62	80	6	6	6	1.02
1837149--1837228	42	1.9	42	84	5	108	48	1	35	15	1.52
1837155--1837250	42	2.3	41	80	3	102	46	2	36	14	1.56
1844298--1845025	28	25.5	29	81	8	530	28	31	17	21	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11