genome.fa.s162.2.7.7.80.10.50.1000.10.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: Scaffold162
Parameters: 2 7 7 80 10 50 1000
Length:  1959167

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

This is table  10  of  12  ( 1418 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)
1472847--1472902	25	2.2	24	81	12	60	21	10	0	67	1.20
1473438--1473473	11	3.3	11	84	0	54	0	30	0	69	0.89
1475843--1475880	17	2.2	18	86	13	53	2	18	0	78	0.86
1477169--1477202	17	1.9	18	94	5	61	76	0	5	17	0.98
1481615--1481640	13	2.0	13	100	0	52	38	15	15	30	1.88
1483862--1483911	21	2.3	21	80	10	57	56	4	18	22	1.58
1485709--1485739	15	2.1	15	93	0	53	48	16	22	12	1.80
1487949--1487988	22	2.0	20	85	14	55	25	20	5	50	1.68
1490285--1490347	19	3.6	19	76	24	84	36	19	15	28	1.92
1490303--1490360	13	4.0	13	76	23	62	37	17	15	29	1.90
1490285--1490361	32	2.4	32	100	0	154	36	19	15	28	1.92
1491245--1491284	21	1.9	21	94	0	71	32	10	17	40	1.83
1491266--1491296	13	2.4	13	94	0	53	35	12	16	35	1.87
1491341--1491396	19	2.9	19	91	2	85	35	17	16	30	1.92
1576642--1576697	20	2.8	19	89	5	76	39	14	16	30	1.88
1576767--1576792	13	2.0	13	100	0	52	38	15	15	30	1.88
1576749--1576812	32	2.0	33	90	3	103	42	15	14	28	1.86
1580869--1580900	15	2.1	15	94	0	55	46	15	21	15	1.83
1582980--1583018	13	3.0	13	96	0	69	30	17	15	35	1.91
1583130--1583175	21	2.2	20	81	11	58	32	19	4	43	1.71
1584629--1584672	23	2.0	21	82	8	52	15	9	15	59	1.61
1585579--1585604	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585561--1585624	32	2.0	33	90	3	103	42	15	14	28	1.86
1591276--1591369	20	4.7	20	92	2	145	27	12	15	43	1.84
1593705--1594070	79	4.6	79	82	5	436	29	25	12	33	1.92
1593705--1594068	157	2.3	157	87	2	489	29	25	11	33	1.91
1594002--1594169	51	3.3	51	87	4	223	30	25	11	33	1.91
1594055--1594309	130	2.0	130	90	0	402	30	25	10	34	1.89
1593941--1594294	181	2.0	181	88	1	530	31	24	9	34	1.88
1594183--1594299	51	2.3	51	86	4	182	33	23	10	32	1.89
1594282--1594337	28	2.0	28	92	0	94	21	32	17	28	1.96
1600501--1600923	122	3.5	120	87	5	570	25	26	19	29	1.99
1600501--1600923	62	7.0	61	86	5	538	25	26	19	29	1.99
1600843--1600946	55	1.9	55	84	4	138	27	26	23	22	1.99
1600871--1601043	94	1.8	94	90	2	276	25	29	21	23	1.99
1600968--1601273	55	5.3	55	77	13	239	27	27	20	25	1.99
1600989--1601276	117	2.5	114	82	7	339	26	27	20	25	1.99
1600656--1601603	327	2.9	320	84	7	1224	25	27	20	27	1.99
1601315--1601735	122	3.5	118	81	9	509	24	26	20	28	1.99
1601292--1601735	61	7.6	60	80	12	462	25	26	20	28	1.99
1601297--1601725	177	2.5	174	86	7	586	25	26	20	26	1.99
1601731--1601847	45	2.7	43	84	6	139	20	27	12	39	1.89
1601726--1601997	42	6.6	43	72	17	188	18	26	12	41	1.87
1601726--1601891	87	1.9	86	84	6	219	19	26	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601862--1601930	35	2.1	33	84	13	88	21	23	15	39	1.92
1602634--1602687	20	2.7	20	85	0	72	29	12	11	46	1.77
1605087--1605450	78	4.6	78	86	4	475	29	25	11	33	1.91
1605384--1605551	51	3.3	51	88	2	239	29	25	11	33	1.91
1605087--1605451	157	2.3	158	90	3	576	29	25	11	33	1.91
1605435--1605711	130	2.1	130	89	1	412	28	25	12	33	1.92
1605565--1605683	51	2.3	51	85	2	168	29	25	12	32	1.92
1605307--1605680	181	2.1	180	87	3	545	29	24	11	34	1.91
1605666--1605731	28	2.4	27	90	10	98	22	27	21	28	1.99
1606938--1607106	79	2.2	79	80	2	189	31	17	26	23	1.97
1607058--1607129	28	2.6	28	86	4	92	23	19	34	22	1.96
1607138--1607292	52	2.9	53	81	4	179	34	10	22	32	1.88
1607323--1607393	27	2.6	28	82	8	83	23	21	29	25	1.99
1607380--1607502	51	2.4	51	83	5	149	32	9	24	33	1.88
1611033--1611135	53	2.0	50	92	5	170	34	14	18	32	1.91
1612333--1612370	19	2.0	19	85	10	51	68	7	0	23	1.16
1612369--1612521	16	9.5	16	73	4	87	55	7	3	33	1.46
1613158--1613949	55	14.0	55	85	8	934	24	20	28	27	1.99
1613155--1613972	115	7.2	113	84	8	966	24	20	28	27	1.99
1613319--1613408	26	3.3	26	65	14	74	23	17	30	28	1.97
1613484--1613573	26	3.3	26	67	8	81	20	17	34	27	1.95
1613158--1613972	175	4.8	172	87	4	1120	24	20	28	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615591--1615616	13	2.0	13	100	0	52	30	15	15	38	1.88
1615655--1615730	21	3.7	21	80	3	100	28	17	11	42	1.84
1615676--1615748	20	3.6	20	81	3	101	31	19	13	35	1.91
1615655--1615748	41	2.3	41	98	0	179	29	18	12	39	1.88
1618190--1618228	13	3.0	13	96	0	69	35	15	17	30	1.91
1618214--1618292	20	3.7	20	75	18	70	45	15	13	25	1.83
1620307--1620337	15	2.1	15	93	0	53	12	22	16	48	1.80
1624294--1624319	13	2.0	13	100	0	52	30	15	15	38	1.88
1624358--1624433	21	3.7	21	80	3	100	28	17	11	42	1.84
1624379--1624451	20	3.6	20	81	3	101	31	19	13	35	1.91
1624358--1624451	41	2.3	41	98	0	179	29	18	12	39	1.88
1624864--1624934	1	71.0	1	75	0	61	0	4	8	87	0.66
1624865--1624934	13	5.3	13	83	13	81	0	4	8	87	0.67
1624870--1624934	18	3.7	17	81	18	80	0	3	9	87	0.64
1628030--1628054	13	1.9	13	100	0	50	36	16	16	32	1.90
1628010--1628076	33	2.0	33	88	0	98	32	11	14	40	1.83
1628117--1628141	13	1.9	13	100	0	50	32	16	16	36	1.90
1628150--1628278	52	2.5	52	96	0	231	34	18	17	29	1.94
1637666--1637690	12	2.1	12	100	0	50	68	0	0	32	0.90
1639967--1640150	52	3.5	52	79	5	201	34	11	24	29	1.90
1640173--1640245	27	2.7	27	86	2	92	23	20	32	23	1.98
1640232--1640352	51	2.3	52	87	5	165	34	10	22	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1643577--1643679	53	2.0	52	92	5	174	34	14	18	32	1.91
1644882--1644919	19	2.0	19	85	10	51	68	2	0	28	1.03
1644931--1645070	16	8.6	16	77	2	118	57	5	2	35	1.33
1645966--1646001	2	18.0	2	88	0	54	50	5	0	44	1.25
1645966--1646006	16	2.6	16	96	0	73	48	9	0	41	1.36
1645977--1646006	14	2.1	14	93	0	51	50	10	0	40	1.36
1648416--1648454	18	2.1	19	90	4	62	46	0	0	53	1.00
1648412--1648458	19	2.4	19	82	10	60	46	0	0	53	1.00
1648777--1648852	16	4.8	15	79	12	73	39	23	17	19	1.92
1648779--1648860	32	2.6	32	74	12	87	41	23	15	19	1.90
1649944--1650049	48	2.2	48	81	3	133	42	31	15	11	1.82
1649944--1650049	16	6.6	16	82	0	113	42	31	15	11	1.82
1650071--1650106	15	2.4	15	90	9	56	55	27	0	16	1.42
1650410--1650457	18	2.6	18	93	3	78	50	0	0	50	1.00
1650420--1650467	22	2.2	22	81	7	53	56	0	2	41	1.11
1654314--1654385	25	2.6	27	76	14	76	51	0	0	48	1.00
1654352--1654376	13	1.9	13	100	0	50	40	0	0	60	0.97
1654497--1654557	12	5.5	11	90	9	81	50	0	1	47	1.10
1654507--1654558	2	26.5	2	96	3	97	50	0	0	50	1.00
1656336--1656370	13	2.6	13	86	4	52	37	0	2	60	1.12
1657061--1657138	30	2.6	30	93	0	129	34	2	14	48	1.57
1659929--1659967	18	2.3	16	86	8	51	10	5	33	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1663670--1663720	26	2.0	26	84	7	68	52	0	1	45	1.12
1664040--1664099	2	30.5	2	85	9	79	43	1	0	55	1.10
1664084--1664144	25	2.4	26	78	13	74	34	4	0	60	1.18
1664414--1664462	24	2.0	24	81	14	57	16	4	6	73	1.19
1664472--1664692	117	1.9	117	83	0	289	30	10	7	51	1.63
1665044--1665158	47	2.5	44	78	12	124	40	7	17	33	1.78
1665671--1665713	19	2.3	19	80	8	52	58	0	4	37	1.19
1666068--1666120	19	2.7	21	70	24	60	39	1	0	58	1.09
1666122--1666168	11	4.4	11	82	12	53	34	0	2	63	1.06
1666122--1666164	16	2.5	17	85	11	61	32	0	2	65	1.06

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