genome.fa.s13.2.7.7.80.10.50.1000.9.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: Scaffold13
Parameters: 2 7 7 80 10 50 1000
Length:  2744999

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

This is table  9  of  15  ( 1714 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)
1675837--1675884	18	2.9	15	77	19	51	41	0	4	54	1.20
1681520--1681598	28	2.9	28	78	12	83	58	1	0	40	1.06
1682759--1682796	9	4.4	9	83	9	53	15	0	2	81	0.80
1683149--1683199	20	2.5	20	84	12	61	52	1	0	45	1.12
1684756--1686825	275	7.6	275	82	5	2204	39	14	9	36	1.79
1684756--1686825	551	3.8	552	82	5	2305	39	14	9	36	1.79
1684749--1686825	829	2.5	824	85	4	2713	39	14	9	36	1.79
1686982--1687028	20	2.3	21	88	3	69	74	6	6	12	1.20
1687135--1687222	10	8.9	9	73	22	54	76	7	2	13	1.11
1687148--1687212	21	3.2	20	78	8	69	80	7	1	10	0.98
1687135--1687212	10	7.8	10	76	9	70	76	8	1	12	1.06
1688159--1688215	24	2.4	24	77	16	64	64	5	3	26	1.30
1692832--1692856	11	2.3	11	100	0	50	60	0	0	40	0.97
1692962--1693070	39	2.8	39	80	0	128	39	4	14	41	1.67
1693515--1693544	14	2.1	14	100	0	60	43	16	13	26	1.85
1696220--1696278	20	2.8	20	85	12	66	42	11	16	28	1.84
1698045--1698812	72	10.7	71	76	10	534	53	12	2	32	1.50
1698192--1698320	40	3.4	39	69	18	94	54	6	2	37	1.38
1698045--1698812	144	5.3	143	75	11	655	53	12	2	32	1.50
1698545--1698661	61	1.9	61	82	3	146	55	12	1	29	1.47
1698464--1698735	136	2.0	135	83	9	349	54	13	1	30	1.46
1698759--1698869	57	1.9	57	87	3	161	58	10	1	28	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1698605--1698850	77	3.3	74	74	12	207	56	13	2	27	1.50
1698393--1698954	206	2.7	207	79	8	583	54	14	1	30	1.49
1698970--1699560	73	8.2	72	75	9	444	52	11	2	32	1.52
1698816--1699359	146	3.9	137	75	11	364	54	11	2	31	1.50
1698970--1699555	146	4.1	144	78	8	509	52	11	2	32	1.52
1699605--1699653	25	2.0	26	84	8	66	57	8	6	28	1.52
1701373--1701433	20	2.9	22	83	9	83	55	0	0	44	0.99
1701375--1701446	20	3.3	22	79	13	78	56	0	1	41	1.07
1702259--1702289	2	15.5	2	100	0	62	0	48	0	51	1.00
1703269--1703485	34	6.4	34	84	3	269	24	7	26	41	1.81
1703269--1703487	67	3.2	66	83	3	285	24	7	26	41	1.81
1703269--1703485	101	2.1	102	88	3	330	24	7	26	41	1.81
1703790--1703852	19	3.3	19	90	0	90	28	17	19	34	1.94
1707918--1708135	34	6.5	34	85	1	278	24	7	26	41	1.81
1707918--1708137	67	3.3	66	84	2	296	24	7	26	41	1.81
1707918--1708135	101	2.2	101	89	2	339	24	7	26	41	1.81
1708564--1708792	114	2.0	114	100	0	458	40	8	13	37	1.76
1709069--1709127	20	3.0	20	82	4	68	61	0	0	38	0.96
1709105--1709137	14	2.3	15	89	5	50	54	0	0	45	0.99
1710646--1710709	31	2.1	30	88	2	92	56	10	7	25	1.60
1712940--1712964	2	12.5	2	100	0	50	48	0	0	52	1.00
1713692--1713758	20	3.3	19	73	10	53	40	0	1	58	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721962--1722003	3	14.0	3	94	0	75	64	0	2	33	1.07
1723383--1723433	24	2.1	25	82	10	61	56	1	1	39	1.22
1725068--1725125	14	4.2	14	75	18	59	39	0	1	58	1.08
1725982--1726009	3	9.3	3	100	0	56	35	0	0	64	0.94
1726467--1726518	2	25.5	2	88	3	77	46	3	1	48	1.31
1730236--1730319	16	5.2	16	79	13	84	26	0	17	55	1.42
1730246--1730319	32	2.3	32	86	4	96	25	0	17	56	1.41
1730344--1730392	21	2.3	20	82	6	53	34	0	0	65	0.93
1730447--1730516	16	3.9	18	71	19	58	40	0	0	60	0.97
1730484--1730538	18	2.9	19	81	13	60	45	0	1	52	1.11
1730495--1730551	19	3.0	19	79	7	62	49	0	1	49	1.11
1730697--1730743	24	2.0	23	87	4	67	55	0	0	44	0.99
1730701--1730742	12	3.5	12	81	12	50	52	0	0	47	1.00
1731932--1731986	16	3.4	16	77	5	56	38	0	7	54	1.28
1731928--1731989	33	1.9	33	83	3	81	35	0	6	58	1.24
1731998--1732041	21	2.1	21	82	0	52	20	4	22	52	1.65
1735828--1735860	12	2.8	12	95	0	57	24	6	0	69	1.10
1736422--1736497	28	2.7	27	87	6	98	36	30	6	26	1.82
1736422--1736507	29	3.0	29	83	8	104	37	29	5	27	1.80
1736659--1736699	20	2.0	20	100	0	82	24	34	9	31	1.88
1740241--1740267	13	2.1	13	100	0	54	29	14	14	40	1.86
1740222--1740286	33	2.0	32	91	8	105	26	13	16	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1746521--1746562	13	3.2	13	89	0	66	30	11	14	42	1.81
1752911--1752980	33	2.1	34	84	7	90	35	17	12	34	1.88
1753009--1753063	19	2.8	20	86	5	76	36	18	16	29	1.92
1753051--1753075	13	1.9	13	100	0	50	40	16	16	28	1.89
1753834--1753879	21	2.2	21	96	0	83	45	17	4	32	1.68
1755573--1755614	13	3.2	13	93	0	75	42	16	11	28	1.84
1761824--1761878	19	2.8	20	86	5	76	36	18	16	29	1.92
1761866--1761890	13	1.9	13	100	0	50	40	16	16	28	1.89
1799765--1799804	21	1.9	21	85	10	55	32	20	7	40	1.80
1799830--1800305	58	8.2	57	77	5	300	27	10	15	46	1.78
1799885--1800256	116	3.2	114	77	5	370	26	9	16	47	1.78
1799830--1800275	175	2.6	174	80	6	447	27	10	15	46	1.78
1800151--1800241	29	3.1	29	66	17	80	28	8	14	48	1.73
1799885--1800302	174	2.4	174	80	6	418	27	10	16	46	1.78
1800268--1800336	34	2.0	34	88	5	104	27	13	14	44	1.82
1800308--1800419	59	1.9	58	85	1	152	26	8	13	51	1.68
1800307--1800429	58	2.1	59	80	1	140	27	8	12	51	1.69
1804303--1804351	24	1.9	27	84	12	68	44	6	0	48	1.27
1804713--1804757	21	2.1	22	84	12	58	42	0	0	57	0.98
1805086--1805141	21	2.5	21	80	8	58	51	3	1	42	1.29
1805107--1805138	16	2.0	16	93	0	55	59	0	0	40	0.97
1805200--1805242	15	2.8	16	78	7	52	51	6	2	39	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1805449--1805491	22	2.0	22	90	9	70	39	0	0	60	0.97
1813134--1813161	14	2.0	14	100	0	56	28	28	14	28	1.95
1814649--1814841	40	4.8	40	98	0	359	25	19	35	19	1.96
1815072--1815127	19	3.1	19	87	10	73	48	0	0	51	1.00
1815422--1815446	2	12.5	2	100	0	50	52	0	0	48	1.00
1816100--1816133	13	2.7	13	90	4	52	64	0	0	35	0.94
1816193--1816255	25	2.7	24	81	15	78	41	3	0	55	1.16
1816449--1816481	16	2.1	16	88	11	50	57	0	0	42	0.98
1817849--1817935	18	4.8	19	66	17	60	39	0	0	60	0.97
1818903--1818935	14	2.4	14	95	5	59	63	6	12	18	1.48
1819185--1819224	18	2.2	18	86	8	55	0	35	0	65	0.93
1820751--1820798	2	24.0	2	89	0	69	43	2	2	52	1.24
1822040--1822086	23	2.0	23	84	8	60	48	6	4	40	1.48
1822589--1822647	29	2.2	28	80	14	70	28	5	11	54	1.58
1822600--1822656	29	2.0	29	92	0	96	28	3	12	56	1.52
1822880--1822959	22	3.7	22	78	6	92	27	8	27	36	1.86
1822882--1822968	42	2.1	42	82	0	102	32	8	24	35	1.84
1822923--1822971	22	2.2	22	77	0	53	40	8	20	30	1.81
1822979--1823019	20	2.0	20	86	9	57	14	12	29	43	1.82
1823157--1823199	20	2.1	21	82	4	52	41	4	6	46	1.51
1825019--1825084	16	3.9	16	82	11	71	51	9	1	37	1.43
1825851--1825903	20	2.6	21	84	6	72	41	9	16	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1825963--1826017	21	2.6	21	85	0	74	32	14	14	38	1.87
1828653--1828690	20	2.0	20	84	5	51	42	15	15	26	1.87
1830424--1830458	13	2.7	13	90	0	52	34	14	17	34	1.90
1832436--1832495	29	2.0	30	90	3	95	40	20	11	28	1.87
1834692--1834741	21	2.3	22	79	3	57	58	4	16	22	1.55
1836539--1836569	15	2.1	15	93	0	53	48	16	22	12	1.80
1838648--1838673	13	2.0	13	100	0	52	30	15	15	38	1.88
1838794--1838839	21	2.2	20	81	11	58	32	19	4	43	1.71
1840815--1840840	13	2.0	13	100	0	52	38	15	15	30	1.88
1840797--1840860	32	2.0	33	90	3	103	39	18	14	28	1.90

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