genome.fa.s82.2.7.7.80.10.50.1000.12.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: Scaffold82
Parameters: 2 7 7 80 10 50 1000
Length:  2626005

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

This is table  12  of  17  ( 2012 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)
1583480--1583540	23	2.8	23	79	16	76	67	0	0	32	0.91
1583497--1583567	24	3.0	24	79	6	74	61	0	0	38	0.96
1584111--1584244	69	1.9	69	96	0	250	41	11	6	40	1.67
1584367--1584426	23	2.6	23	81	0	75	63	1	1	33	1.14
1584411--1584443	17	1.9	17	88	11	50	69	0	3	27	1.03
1585238--1585271	14	2.6	13	90	9	52	2	0	11	85	0.71
1586999--1587036	2	19.0	2	100	0	76	0	0	50	50	1.00
1590700--1590739	20	2.0	20	95	0	71	47	5	22	25	1.71
1596484--1596668	97	1.9	97	84	0	244	28	17	12	41	1.86
1596469--1596681	97	2.2	96	79	1	237	28	20	11	39	1.87
1603369--1603444	21	3.7	21	78	3	82	43	13	13	30	1.81
1607753--1607799	23	2.0	23	100	0	94	34	21	19	25	1.96
1608710--1608799	41	2.2	41	81	0	108	45	11	7	35	1.69
1610529--1610575	15	3.2	14	80	14	51	74	10	6	8	1.22
1610834--1610871	2	19.0	2	88	0	58	0	44	2	52	1.14
1612739--1612773	18	1.9	18	100	0	70	40	11	22	25	1.88
1617315--1617361	22	2.2	23	85	14	66	46	0	21	31	1.51
1623617--1623642	13	2.0	13	100	0	52	38	15	15	30	1.88
1623597--1623661	31	2.0	33	88	5	98	36	16	12	33	1.87
1623690--1623744	19	2.8	20	88	2	76	34	18	14	32	1.91
1623730--1623756	13	2.1	13	100	0	54	40	14	14	29	1.86
1627327--1627353	13	2.1	13	100	0	54	40	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627340--1627461	21	5.8	21	98	0	235	33	9	18	39	1.82
1627493--1627564	19	3.7	19	80	9	83	33	18	13	34	1.90
1631097--1631148	20	2.4	21	87	9	70	50	3	1	44	1.31
1631114--1631213	13	7.1	14	70	18	57	55	3	0	42	1.15
1631188--1631224	14	2.6	14	86	0	56	64	0	0	35	0.94
1631165--1631214	18	2.6	19	84	6	66	60	4	0	36	1.16
1631111--1631222	56	2.0	56	81	6	129	54	2	0	42	1.14
1634885--1634928	22	2.0	23	86	13	65	50	2	2	45	1.27
1634792--1635107	165	2.0	161	88	6	482	42	4	2	51	1.34
1635042--1635093	23	2.2	24	83	13	63	44	1	1	51	1.23
1636137--1636162	13	2.0	13	100	0	52	38	0	0	61	0.96
1636325--1636393	25	2.9	24	79	14	81	59	0	1	39	1.06
1636338--1636433	36	2.7	35	80	16	115	57	0	2	40	1.10
1637055--1637146	13	6.9	13	70	23	59	39	1	6	53	1.34
1637063--1637146	20	3.9	20	69	22	71	38	1	7	53	1.36
1638282--1638314	17	2.1	16	88	11	50	51	0	0	48	1.00
1640111--1640155	12	3.8	12	85	5	56	64	2	2	31	1.18
1641222--1641277	5	11.6	5	76	14	55	75	19	1	3	1.05
1641222--1641277	19	2.9	19	82	10	69	75	19	1	3	1.05
1641225--1641277	24	2.2	23	83	6	61	75	18	1	3	1.05
1641316--1641349	16	2.1	16	94	0	59	29	11	8	50	1.69
1641792--1641838	21	2.3	21	85	3	60	6	17	0	76	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642012--1642048	2	18.5	2	94	0	65	48	0	0	51	1.00
1646316--1646363	3	16.0	3	100	0	96	66	0	0	33	0.92
1651067--1651125	10	5.6	10	74	18	57	72	5	0	22	1.03
1652533--1652568	2	18.0	2	100	0	72	50	0	50	0	1.00
1655014--1655073	21	2.8	20	82	9	75	51	11	1	35	1.48
1655615--1655648	13	2.5	13	90	4	50	70	0	2	26	1.01
1657632--1657696	19	3.2	21	87	12	109	27	13	10	47	1.76
1658294--1658347	21	2.7	21	88	5	76	37	14	14	33	1.88
1658375--1658412	20	1.9	20	94	0	67	31	10	18	39	1.85
1658395--1658420	13	2.0	13	100	0	52	30	15	15	38	1.88
1658330--1658495	76	2.2	76	94	0	287	33	16	15	34	1.90
1666510--1666580	22	3.2	22	66	7	63	39	1	32	26	1.65
1666562--1666595	15	2.1	17	89	10	54	38	0	32	29	1.58
1667133--1667159	13	2.1	13	100	0	54	29	14	14	40	1.86
1667145--1667200	19	2.8	21	86	8	80	33	14	17	33	1.90
1669450--1669510	32	1.9	32	90	6	97	32	9	19	37	1.85
1669450--1669511	19	3.6	18	71	24	62	32	11	19	37	1.87
1669537--1669575	20	1.9	21	94	5	71	43	10	20	25	1.83
1672089--1672303	79	2.7	81	80	7	244	27	28	13	30	1.94
1684688--1684763	1	76.0	1	76	0	71	88	10	1	0	0.58
1684688--1684763	10	7.8	10	85	7	95	88	10	1	0	0.58
1684689--1684762	28	2.6	28	89	4	114	87	10	1	0	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684691--1684761	18	3.9	18	87	10	101	87	11	1	0	0.61
1685833--1686079	55	4.4	55	89	3	332	28	28	20	21	1.98
1685890--1686288	209	1.9	204	89	4	613	26	28	21	24	1.99
1686146--1686231	27	3.1	27	62	8	66	25	26	20	26	1.99
1686098--1686439	55	6.0	55	84	8	454	26	28	21	24	1.99
1685733--1686597	264	3.3	264	86	5	1034	26	28	20	24	1.99
1686415--1686461	22	2.1	22	100	0	94	23	25	21	29	1.99
1686360--1686513	77	2.0	77	96	0	281	25	25	22	25	2.00
1685919--1686699	254	3.0	256	82	7	807	25	28	20	25	1.99
1686299--1686570	138	2.0	134	85	8	359	25	27	22	25	2.00
1686437--1686751	61	5.4	59	84	8	344	26	27	20	25	1.99
1686238--1686631	193	2.0	198	86	6	548	25	27	21	25	1.99
1686437--1686747	122	2.6	117	83	9	400	26	28	20	24	1.99
1686730--1686773	22	2.0	22	100	0	88	22	22	22	31	1.98
1686675--1686831	77	2.0	77	90	0	242	26	26	20	26	1.99
1686492--1687001	254	2.0	258	87	3	742	25	27	20	26	1.99
1686752--1687032	61	4.8	60	79	10	280	24	27	21	26	1.99
1686752--1687039	116	2.5	117	83	8	331	24	27	20	27	1.99
1686892--1687188	155	1.9	156	88	3	456	24	29	20	25	1.99
1687042--1687440	59	6.7	59	84	6	502	25	28	19	26	1.99
1687042--1687440	121	3.4	119	85	4	533	25	28	19	26	1.99
1687365--1687530	90	1.9	88	88	2	251	24	27	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687459--1687858	55	7.1	55	84	8	459	27	26	19	26	1.99
1687459--1687853	110	3.5	116	88	4	574	27	26	20	25	1.99
1687441--1687830	170	2.3	173	85	9	525	26	26	20	26	1.99
1688668--1688738	32	2.2	32	92	5	117	33	12	18	35	1.89
1688756--1688797	21	2.0	21	100	0	84	42	9	19	28	1.82
1688784--1688809	13	2.0	13	100	0	52	30	15	15	38	1.88
1691173--1691560	52	7.4	53	68	13	196	28	25	12	33	1.92
1691278--1691356	28	2.8	28	81	7	81	22	32	18	25	1.97
1691339--1691562	51	4.4	51	80	2	198	29	24	12	33	1.91
1691547--1691618	28	2.6	28	88	0	99	22	37	19	20	1.94
1691175--1691669	262	1.9	262	93	1	850	27	26	13	32	1.93
1691572--1691793	79	2.8	81	80	5	256	27	28	14	29	1.95
1691493--1691692	107	1.9	108	84	1	276	27	28	15	29	1.96
1696478--1696571	18	5.3	18	67	15	54	37	2	3	57	1.27
1696501--1696631	52	2.8	44	78	18	129	38	1	6	53	1.35
1696491--1696615	52	2.4	52	94	1	214	38	2	4	54	1.35
1698127--1698151	13	1.9	13	100	0	50	60	0	0	40	0.97
1698604--1698643	18	2.2	19	90	4	64	45	0	0	55	0.99
1701577--1701611	13	2.5	14	90	9	54	51	0	0	48	1.00
1703307--1703336	13	2.3	13	94	0	51	33	6	10	50	1.62
1706450--1706492	2	21.5	2	95	0	77	46	0	2	51	1.13
1706721--1706750	9	3.3	9	90	0	51	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707613--1707692	16	4.9	16	73	13	65	67	2	1	28	1.11
1707615--1707698	21	4.1	21	67	17	61	67	2	1	28	1.10
1707615--1707698	5	15.6	5	75	13	60	67	2	1	28	1.10
1708087--1708134	24	2.0	24	84	8	62	52	0	4	43	1.20
1715585--1715611	13	2.1	13	100	0	54	0	14	0	85	0.61
1715584--1715612	14	2.0	15	93	6	51	0	17	0	82	0.66
1716032--1716065	17	1.9	18	88	5	52	32	0	0	67	0.91
1719412--1719455	15	2.8	16	83	13	56	4	2	11	81	0.92
1724746--1724850	28	3.7	28	67	19	74	43	0	0	56	0.99
1724789--1724824	10	3.8	10	89	10	58	27	0	0	72	0.85

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