genome.fa.s202.2.7.7.80.10.50.1000.9.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: Scaffold202
Parameters: 2 7 7 80 10 50 1000
Length:  2706578

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

This is table  9  of  16  ( 1899 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)
1544453--1544620	53	3.2	52	77	5	158	36	14	25	24	1.93
1544677--1544790	52	2.1	55	87	4	162	37	13	22	26	1.91
1544744--1545314	43	12.6	43	71	18	340	31	17	24	26	1.97
1544745--1544812	21	3.2	20	66	25	50	29	16	26	27	1.97
1544685--1544966	145	1.9	144	86	7	401	33	16	24	26	1.96
1544845--1545052	90	2.2	92	83	9	264	29	20	23	26	1.99
1544744--1545314	133	4.2	135	80	12	519	31	17	24	26	1.97
1544744--1545314	145	4.2	133	79	12	529	31	17	24	26	1.97
1545445--1545524	33	2.5	32	90	7	128	18	16	37	27	1.92
1545539--1545707	31	5.2	33	78	13	172	30	12	36	21	1.90
1545712--1546099	34	11.7	34	79	9	324	34	13	32	19	1.91
1545619--1545795	88	2.0	88	83	6	225	32	13	35	18	1.90
1545977--1546036	27	2.2	27	90	0	93	35	13	31	20	1.91
1546069--1546224	32	5.0	31	82	6	190	31	16	28	23	1.96
1546071--1546224	64	2.5	61	86	6	211	31	16	28	24	1.96
1547242--1547276	15	2.2	16	90	5	54	0	8	5	85	0.73
1547524--1547557	12	2.8	12	90	4	50	0	2	11	85	0.71
1554528--1554643	52	2.2	52	89	3	180	29	16	19	34	1.94
1554632--1554656	13	1.9	13	100	0	50	36	16	16	32	1.90
1554697--1554794	32	3.0	32	81	1	115	36	17	11	34	1.85
1555308--1555513	102	2.0	102	100	0	412	31	23	18	26	1.98
1556405--1556497	20	4.7	20	87	0	123	45	9	13	31	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556407--1556497	40	2.3	40	88	0	137	46	9	13	30	1.75
1556577--1556652	32	2.5	31	85	8	93	28	13	18	39	1.88
1556605--1556725	50	2.4	52	79	5	149	32	13	15	38	1.86
1561036--1561087	27	1.9	27	100	0	104	11	26	15	46	1.80
1563690--1564488	156	5.1	151	74	8	516	37	19	18	24	1.94
1563721--1564504	312	2.5	310	82	3	887	37	19	18	23	1.94
1567373--1567832	163	2.8	165	84	5	556	51	8	10	28	1.66
1567379--1567892	165	3.1	165	81	7	469	52	8	10	28	1.65
1568008--1568074	33	2.0	33	88	0	98	34	16	20	28	1.95
1570502--1570782	57	4.9	57	77	8	191	29	10	13	46	1.76
1570543--1570750	114	1.8	115	82	7	271	29	9	14	47	1.75
1571512--1571546	12	2.8	13	86	8	54	31	14	20	34	1.92
1571627--1571678	20	2.6	20	96	0	95	40	15	13	30	1.86
1571595--1571657	32	1.9	32	87	3	90	41	14	14	30	1.85
1571951--1572360	58	7.2	58	74	5	280	27	10	13	48	1.76
1573419--1573449	13	2.3	14	94	5	55	38	6	0	54	1.26
1575085--1575145	21	3.0	19	79	13	68	75	3	0	21	0.94
1575086--1575145	14	4.4	14	82	14	63	75	3	0	21	0.95
1575557--1575600	22	2.0	22	100	0	88	31	18	18	31	1.95
1575887--1575931	17	2.5	19	82	14	67	42	0	0	57	0.98
1576115--1576150	16	2.2	16	95	0	63	11	8	33	47	1.69
1576156--1576248	16	5.8	16	75	5	80	16	18	26	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576386--1576424	18	2.2	18	86	9	53	33	2	0	64	1.08
1576443--1576478	18	1.9	18	88	5	54	50	0	0	50	1.00
1576441--1576478	17	2.2	17	90	9	60	50	0	0	50	1.00
1576838--1576963	56	2.3	57	78	8	143	46	21	16	15	1.83
1577110--1577147	17	2.4	15	87	12	58	42	2	0	55	1.14
1577111--1577156	17	2.8	17	84	15	53	43	2	0	54	1.12
1578411--1578445	17	1.9	19	88	11	56	51	2	0	45	1.16
1578455--1578487	16	2.0	17	94	5	59	30	0	0	69	0.88
1578456--1578494	16	2.3	16	86	8	51	33	2	0	64	1.08
1583107--1583484	124	3.1	120	84	10	419	54	1	1	42	1.16
1583118--1583247	68	1.9	68	81	7	158	54	0	0	43	1.11
1583290--1583391	46	2.4	39	73	15	89	61	0	0	37	1.03
1583175--1583507	124	2.7	126	88	7	477	55	1	1	41	1.18
1584201--1584237	19	1.9	19	100	0	74	43	10	5	40	1.63
1584385--1584763	86	4.3	87	78	10	364	44	6	13	35	1.70
1584383--1584763	172	2.2	172	82	5	442	44	6	13	35	1.69
1585342--1585415	20	3.7	19	80	7	76	31	14	10	43	1.80
1587708--1587876	51	3.3	51	85	3	198	28	26	12	33	1.92
1587812--1588163	79	4.5	79	83	4	444	27	24	14	33	1.94
1587812--1588170	155	2.3	152	84	7	466	27	24	14	33	1.94
1594194--1594494	62	5.0	62	88	3	425	25	26	19	28	1.99
1594976--1595094	51	2.3	51	81	2	150	32	10	25	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1595184--1595260	28	2.7	30	92	7	126	27	20	29	22	1.98
1595034--1595307	107	2.6	105	79	6	334	33	16	24	25	1.96
1595269--1595397	64	2.0	64	93	0	222	27	10	26	34	1.90
1595333--1595451	51	2.3	51	86	0	175	32	10	24	32	1.89
1597762--1597816	20	2.7	21	83	8	69	40	12	14	32	1.84
1597797--1597826	13	2.3	13	100	0	60	40	16	13	30	1.87
1597782--1597880	33	3.0	33	87	0	144	41	14	14	30	1.85
1597809--1597898	20	4.8	20	76	19	97	45	14	12	27	1.80
1597830--1597860	13	2.4	13	94	0	53	41	16	9	32	1.80
1598582--1598772	42	4.4	43	80	10	214	37	15	26	20	1.92
1598748--1598992	61	4.0	61	86	6	336	27	20	27	24	1.99
1598936--1599117	94	1.9	95	92	3	305	24	18	31	25	1.97
1599133--1599258	45	3.0	43	76	17	147	40	11	26	21	1.87
1599082--1599258	88	2.0	85	88	7	259	40	11	27	20	1.87
1599086--1599294	47	4.6	47	73	16	195	39	12	26	21	1.89
1599271--1599833	61	9.3	61	86	2	679	26	19	28	25	1.99
1605516--1605665	79	1.9	78	85	6	205	32	14	26	28	1.94
1605597--1605715	51	2.3	51	83	8	152	31	10	26	31	1.89
1605701--1605774	28	2.7	29	83	6	91	25	22	31	20	1.98
1605806--1605879	28	2.6	28	91	0	112	24	21	32	21	1.98
1608351--1608424	20	3.7	19	83	7	85	43	12	14	29	1.82
1608440--1608469	13	2.3	13	94	0	51	40	10	16	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608451--1608507	20	2.8	20	91	0	96	43	14	15	26	1.85
1612074--1612137	12	5.2	12	75	9	58	76	1	21	0	0.87
1612917--1613255	110	3.1	108	81	7	357	33	13	16	36	1.88
1612973--1613312	110	3.1	105	82	7	362	34	13	15	36	1.87
1613738--1613762	12	2.1	12	100	0	50	76	0	0	24	0.80
1614908--1614944	18	2.1	18	100	0	74	27	24	16	32	1.96
1615400--1615429	12	2.5	12	94	0	51	30	3	0	66	1.07
1616379--1616420	2	21.0	2	100	0	84	50	0	0	50	1.00
1616553--1616614	23	2.8	23	85	9	76	43	3	6	46	1.45
1618881--1618917	20	1.9	20	94	5	67	48	0	2	48	1.15
1619090--1619132	20	2.0	22	86	8	63	46	0	0	53	1.00
1619062--1619137	25	3.1	25	76	14	77	47	0	0	52	1.00
1625454--1625481	14	2.0	14	100	0	56	64	0	0	35	0.94
1626841--1626883	23	1.9	22	85	4	59	34	0	13	51	1.42
1631362--1631417	15	3.7	15	85	0	76	7	10	0	82	0.85
1631525--1631563	18	2.3	17	86	8	53	5	12	0	82	0.83
1631533--1631591	26	2.3	26	82	5	66	5	16	1	76	1.05
1636890--1636934	19	2.5	17	80	16	54	62	0	0	37	0.96
1636875--1636919	22	2.1	21	84	12	56	60	2	0	37	1.09
1638273--1638306	8	4.1	8	88	7	50	26	0	0	73	0.83
1638273--1638306	17	2.0	17	94	0	59	26	0	0	73	0.83
1642961--1643040	42	1.9	42	84	0	106	17	51	8	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1643289--1643337	2	24.5	2	100	0	98	51	0	0	48	1.00
1644007--1644050	3	14.7	3	85	0	61	65	2	4	27	1.23
1644118--1644142	6	4.2	6	100	0	50	48	0	0	52	1.00
1659860--1659938	40	2.0	40	84	0	104	34	11	36	17	1.86
1659899--1660045	61	2.4	61	97	0	276	40	21	24	14	1.90
1664469--1664509	3	13.7	3	89	0	64	34	34	29	2	1.71
1665327--1665360	2	17.0	2	100	0	68	50	0	0	50	1.00
1666127--1666163	2	18.5	2	94	0	56	43	0	5	51	1.24
1667210--1667246	18	2.1	18	100	0	74	35	10	32	21	1.88
1668287--1668328	19	2.2	19	95	0	75	28	2	19	50	1.60

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