genome.fa.s12.2.7.7.80.10.50.1000.8.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: Scaffold12
Parameters: 2 7 7 80 10 50 1000
Length:  2382857

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

This is table  8  of  12  ( 1413 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)
1457277--1457323	22	2.1	22	84	7	60	12	21	17	48	1.79
1459322--1459355	11	3.0	11	87	8	50	76	8	0	14	1.01
1459304--1459349	21	2.3	20	85	14	60	73	8	0	17	1.07
1460598--1460703	44	2.4	44	100	0	212	27	11	13	48	1.76
1461428--1461496	20	3.3	20	78	21	88	47	0	39	13	1.42
1461406--1461511	42	2.5	42	93	0	185	44	0	42	12	1.48
1461401--1461491	24	4.0	24	72	17	86	46	1	40	12	1.48
1470263--1470335	12	6.6	12	67	28	54	43	0	42	13	1.44
1470263--1470335	24	3.3	24	69	21	77	43	0	42	13	1.44
1470263--1470382	42	2.8	42	87	1	168	45	0	43	10	1.45
1475904--1476106	107	1.9	107	98	0	397	25	14	14	44	1.84
1477000--1477041	19	2.4	17	78	17	50	50	16	21	11	1.77
1477005--1477040	19	1.9	18	88	5	54	44	16	25	13	1.85
1481276--1481376	42	2.4	42	93	0	175	46	0	39	13	1.44
1481379--1481423	21	2.2	20	88	4	63	51	0	42	6	1.28
1481430--1481527	49	2.0	49	100	0	196	38	10	24	26	1.87
1489916--1489950	2	17.5	2	100	0	70	48	0	0	51	1.00
1491172--1491210	21	1.9	20	94	5	69	35	20	12	30	1.90
1491269--1491323	19	2.9	19	91	0	92	36	10	18	34	1.86
1491345--1491382	20	1.9	20	100	0	76	36	13	10	39	1.79
1498321--1498373	22	2.5	22	87	9	74	83	15	0	1	0.74
1499562--1499985	32	13.6	33	80	9	394	22	27	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1499566--1499973	61	6.6	60	82	9	426	22	27	15	33	1.95
1499566--1500061	32	16.0	31	79	9	381	22	27	14	34	1.94
1499982--1500095	27	4.0	27	79	12	102	21	28	12	36	1.90
1499949--1500114	60	2.8	60	83	2	172	22	28	12	36	1.90
1500005--1500218	33	6.8	33	75	15	112	20	29	12	37	1.89
1500003--1500216	95	2.3	93	86	4	304	20	29	12	37	1.89
1500132--1500220	27	3.1	27	75	22	99	20	32	13	33	1.91
1500098--1500220	60	2.0	62	90	3	196	20	30	13	36	1.90
1504836--1504932	51	1.9	51	85	4	133	48	22	7	21	1.74
1507672--1507747	12	6.9	11	75	15	52	39	2	48	9	1.49
1507671--1507756	24	3.8	24	72	17	85	41	2	45	10	1.51
1507662--1507780	42	2.8	42	92	0	193	42	2	46	8	1.47
1510406--1510437	13	2.5	13	94	0	55	28	9	12	50	1.71
1521330--1521448	42	2.8	42	92	0	193	8	46	2	42	1.47
1521363--1521438	12	6.9	11	75	15	52	9	48	2	39	1.49
1521354--1521439	24	3.8	24	72	17	85	10	45	2	41	1.51
1521345--1521415	18	3.6	18	69	20	52	9	43	2	43	1.52
1525154--1525229	26	3.2	26	63	27	69	32	13	22	31	1.92
1525141--1525232	44	2.1	44	97	0	175	32	10	22	33	1.89
1525776--1525824	20	2.4	20	90	10	73	81	0	12	6	0.86
1525775--1525824	22	2.3	22	89	6	75	82	0	12	6	0.85
1526302--1528144	921	2.0	920	95	0	3348	32	24	14	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532198--1532251	15	3.4	15	73	14	54	9	50	1	38	1.45
1532214--1532275	18	3.6	18	72	12	58	11	43	1	43	1.50
1532199--1532269	33	2.2	33	92	0	115	11	46	1	40	1.48
1532227--1532298	12	6.5	11	75	16	53	11	47	1	40	1.48
1532229--1532308	42	1.9	42	92	0	133	8	46	1	43	1.42
1536394--1536473	24	3.6	24	69	19	82	42	2	43	11	1.53
1536392--1536497	42	2.5	42	90	0	167	42	2	45	9	1.51
1536454--1536503	18	2.7	19	79	11	52	46	4	44	6	1.47
1547155--1547261	1	107.0	1	79	0	88	0	0	86	13	0.56
1547144--1547263	13	8.7	14	78	13	108	0	0	85	15	0.61
1547155--1547261	26	4.2	25	81	17	121	0	0	86	13	0.56
1547155--1547261	25	4.1	27	81	8	125	0	0	86	13	0.56
1547145--1547261	50	2.3	51	85	11	154	0	0	85	14	0.60
1547148--1547271	15	7.8	16	77	16	107	0	0	83	16	0.64
1547155--1547261	28	3.8	29	83	10	125	0	0	86	13	0.56
1643504--1644508	158	6.3	159	75	7	661	38	14	16	30	1.88
1643503--1644010	159	3.2	158	79	5	461	39	14	15	30	1.87
1643503--1644246	317	2.3	317	79	6	769	38	14	16	30	1.89
1651266--1651942	158	4.3	157	78	5	639	36	14	18	30	1.90
1651369--1651942	317	1.8	316	81	1	729	36	13	17	32	1.89
1652588--1652650	23	2.6	24	75	5	65	63	7	1	26	1.31
1660672--1660747	38	2.0	38	92	0	125	26	19	31	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1671758--1671818	9	7.1	9	72	10	56	11	44	1	42	1.50
1671763--1671797	12	2.9	12	84	16	54	11	48	0	40	1.39
1671730--1671848	42	2.8	42	90	0	184	9	46	1	42	1.46
1671754--1671839	24	3.8	24	73	17	85	11	45	1	41	1.48
1675040--1675121	28	2.9	29	78	7	89	58	7	19	14	1.59
1681355--1681385	16	1.9	16	100	0	62	32	12	16	38	1.86
1695100--1695129	12	2.5	12	94	0	51	50	16	16	16	1.79
1697256--1697452	103	1.9	103	88	0	295	34	12	25	27	1.92
1697362--1697528	76	2.2	76	86	0	244	36	12	23	27	1.91
1700642--1700913	37	8.2	31	74	13	129	26	18	25	29	1.98
1700655--1700740	31	2.7	31	82	7	102	26	23	23	26	2.00
1700642--1700856	71	3.2	66	78	7	166	26	18	25	28	1.98
1700644--1700748	32	3.3	31	78	7	113	28	19	25	26	1.98
1700750--1700948	64	2.9	72	83	9	213	24	18	25	32	1.97
1700739--1700948	37	6.1	37	79	12	200	24	17	25	31	1.97
1700826--1700962	64	2.1	65	89	2	204	25	19	24	30	1.98
1700863--1700961	29	3.2	29	73	15	90	26	21	23	29	1.99
1700940--1701364	29	14.7	29	76	7	335	27	14	31	27	1.95
1700875--1701364	59	8.3	59	79	6	374	27	14	30	27	1.95
1700937--1701362	148	3.0	145	83	6	508	27	13	30	27	1.94
1704110--1704201	24	4.2	23	72	18	79	43	2	44	9	1.49
1704101--1704210	42	2.6	42	91	0	175	44	1	44	9	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709217--1709241	13	1.9	13	100	0	50	32	16	16	36	1.90
1710411--1710482	28	2.6	27	89	8	101	25	19	31	23	1.98
1712966--1712991	13	2.0	13	100	0	52	38	15	15	30	1.88
1712945--1713011	33	2.0	33	88	0	98	43	16	14	25	1.86
1713871--1714705	55	14.9	54	87	6	1030	23	20	28	28	1.98
1714303--1714388	27	3.1	27	62	15	68	23	16	30	30	1.96
1715683--1715758	9	7.9	9	74	15	55	0	13	5	81	0.85
1715720--1715759	11	3.7	11	86	6	64	0	12	2	85	0.71
1715712--1715761	21	2.4	21	83	12	75	0	10	6	84	0.79
1724522--1724593	28	2.6	28	88	0	99	23	19	33	23	1.97
1727077--1727102	13	2.0	13	100	0	52	38	15	15	30	1.88
1727056--1727122	33	2.0	33	88	0	98	43	16	14	25	1.86
1727164--1727188	13	1.9	13	100	0	50	32	16	16	36	1.90
1727145--1727207	32	2.0	32	93	0	108	36	14	12	36	1.84
1727142--1727209	19	3.9	19	76	21	76	38	13	11	36	1.81
1727566--1727591	13	2.0	13	100	0	52	30	15	15	38	1.88
1727546--1727613	33	2.1	32	91	8	111	35	16	16	32	1.91
1733463--1733501	13	3.0	13	88	0	60	30	17	15	35	1.91
1735991--1736031	20	2.0	20	95	0	73	34	24	12	29	1.91
1736041--1736065	13	1.9	13	100	0	50	32	16	16	36	1.90
1736020--1736082	33	1.9	32	87	3	90	33	20	15	30	1.94
1736134--1736200	33	2.1	32	88	8	100	35	14	14	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748346--1748426	37	2.2	37	86	4	110	23	22	22	32	1.98
1748731--1748847	29	4.0	29	87	5	139	26	17	27	28	1.98
1748777--1749113	31	10.5	31	70	12	198	24	18	25	30	1.98
1748789--1748946	36	4.7	36	74	12	151	22	18	27	32	1.97
1748789--1748974	67	2.8	67	89	1	268	22	19	26	31	1.98
1749047--1749175	37	3.6	34	79	7	107	25	17	24	32	1.97
1749591--1749629	15	2.5	16	83	4	53	33	15	12	38	1.85
1759639--1760114	52	9.2	52	77	1	308	32	14	24	27	1.95
1759731--1760137	156	2.6	155	82	3	451	33	14	24	28	1.94
1759780--1760207	52	8.2	52	80	5	359	32	14	24	28	1.94

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