genome.fa.s293.2.7.7.80.10.50.1000.11.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: Scaffold293
Parameters: 2 7 7 80 10 50 1000
Length:  1704560

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

This is table  11  of  12  ( 1341 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)
1540627--1540669	17	2.4	18	92	3	70	74	2	6	16	1.14
1540639--1540685	17	2.7	17	86	3	58	72	0	14	12	1.13
1540802--1540831	15	1.9	16	93	6	53	30	0	0	70	0.88
1546492--1546552	2	30.5	2	100	0	122	50	0	0	49	1.00
1547409--1547455	13	3.4	14	77	14	53	68	4	0	27	1.08
1548011--1548125	23	5.0	23	73	9	83	64	5	6	24	1.37
1548138--1548222	11	7.9	11	71	17	63	24	1	3	70	1.10
1548162--1548222	10	5.9	10	78	18	63	27	0	1	70	0.97
1548179--1548230	5	10.4	5	78	15	54	32	0	0	67	0.91
1548164--1548234	18	3.8	18	79	17	74	28	0	1	70	0.96
1548141--1548219	23	3.4	23	81	10	72	25	1	3	69	1.12
1548164--1548230	21	3.2	20	80	20	75	29	0	1	68	0.98
1548610--1548660	23	2.2	25	86	10	72	60	21	3	13	1.49
1548678--1548727	23	2.3	22	83	16	68	62	10	8	20	1.52
1548959--1549030	22	3.2	22	86	2	81	68	9	4	18	1.34
1549161--1549221	23	3.0	20	71	17	54	26	4	6	62	1.40
1549279--1549317	20	2.0	20	90	5	62	46	10	2	41	1.51
1549779--1549825	13	3.4	14	82	8	53	34	0	0	65	0.93
1549784--1549831	13	3.8	13	81	13	55	39	0	0	60	0.97
1549803--1549872	17	4.6	16	71	20	51	51	0	0	48	1.00
1549809--1549859	27	2.0	27	84	7	70	50	0	0	49	1.00
1551034--1551059	7	3.7	7	100	0	52	42	0	11	46	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554382--1554413	2	16.0	2	93	0	55	50	3	0	46	1.17
1554719--1554748	11	2.9	10	90	9	51	30	0	0	70	0.88
1555847--1555892	16	2.9	17	81	15	55	67	4	0	28	1.10
1557132--1557183	23	2.3	23	86	0	68	75	3	1	19	1.06
1557229--1557268	21	1.9	21	84	0	53	52	0	2	45	1.14
1557821--1557860	16	2.5	17	84	11	50	32	0	2	65	1.06
1562684--1562743	24	2.7	23	82	12	65	55	1	0	43	1.10
1562777--1562866	15	5.9	15	64	15	51	53	2	1	43	1.20
1562829--1562907	24	3.4	23	68	22	58	53	0	0	46	1.00
1562900--1562943	8	5.6	8	78	5	54	47	2	0	50	1.13
1562830--1562943	11	10.5	11	69	16	67	51	0	0	47	1.06
1563691--1563739	25	2.0	25	96	4	91	24	12	20	42	1.86
1564191--1564252	23	2.8	20	75	18	52	46	1	6	45	1.38
1564293--1564393	37	2.5	40	81	12	120	44	4	2	47	1.40
1564321--1564396	37	2.1	37	97	0	143	46	6	2	44	1.43
1564823--1564862	20	2.0	20	90	4	64	30	0	7	62	1.23
1574774--1574817	14	3.0	15	75	18	56	0	13	4	81	0.83
1574762--1574817	29	2.0	29	93	6	98	0	10	5	83	0.78
1584521--1584558	18	2.1	18	100	0	76	5	21	39	34	1.76
1586207--1586240	10	3.4	10	100	0	68	41	11	17	29	1.85
1587096--1587121	2	13.0	2	100	0	52	50	0	0	50	1.00
1587273--1587323	22	2.4	21	86	3	66	43	19	0	37	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590260--1590307	20	2.4	20	82	6	62	33	4	2	60	1.27
1593754--1593810	22	2.6	21	75	8	53	42	0	3	54	1.17
1593830--1593869	20	2.1	19	90	4	62	55	0	0	45	0.99
1593835--1593876	20	2.2	19	83	8	50	57	0	2	40	1.12
1594144--1594187	17	2.6	17	78	3	54	38	0	0	61	0.96
1596404--1596560	76	2.1	76	97	0	296	45	14	15	24	1.84
1599512--1599577	33	2.0	33	100	0	132	42	9	27	21	1.83
1599846--1599890	22	2.0	22	100	0	90	55	8	8	26	1.60
1602905--1602944	21	1.9	21	90	10	64	40	0	0	60	0.97
1602936--1602994	23	2.6	22	76	17	59	57	1	0	40	1.09
1602931--1603036	40	2.7	39	77	13	101	54	0	0	44	1.06
1604031--1604097	18	3.6	18	76	11	62	64	0	0	35	0.94
1604077--1604118	16	2.6	16	85	10	59	54	0	0	45	0.99
1604037--1604122	21	4.1	21	81	10	81	58	0	0	41	0.98
1604036--1604122	26	3.0	31	71	20	80	58	0	0	41	0.98
1604328--1604352	4	6.2	4	100	0	50	24	0	0	76	0.80
1604400--1604433	2	17.0	2	100	0	68	50	0	0	50	1.00
1605647--1605680	17	2.1	17	89	10	54	38	0	0	61	0.96
1605648--1605690	22	1.9	23	85	4	61	37	0	0	62	0.95
1605657--1605700	22	2.0	22	81	0	52	45	0	0	54	0.99
1606294--1606339	22	2.0	23	83	4	58	54	2	2	41	1.25
1606504--1606528	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608162--1608217	21	2.8	20	84	10	69	28	5	0	66	1.14
1609519--1609559	21	2.0	21	85	4	57	68	0	0	31	0.90
1614361--1614404	23	1.9	23	85	0	61	40	2	2	54	1.25
1615299--1615366	29	2.3	29	78	14	77	48	0	1	50	1.10
1615317--1615362	24	1.9	24	86	0	65	47	0	0	52	1.00
1615803--1615844	14	2.9	15	78	7	50	47	2	2	47	1.28
1618289--1618315	4	6.8	4	100	0	54	0	25	48	25	1.52
1619056--1619100	22	2.0	23	83	12	58	66	0	2	31	1.04
1619614--1619657	21	2.0	22	91	4	72	40	0	0	59	0.98
1621404--1621438	2	17.5	2	93	0	61	48	2	0	48	1.16
1624229--1624291	27	2.2	30	76	21	73	33	3	0	63	1.10
1625188--1625236	19	2.7	18	78	15	55	59	0	0	40	0.98
1627526--1627575	24	2.1	23	81	3	55	14	18	6	62	1.51
1629832--1629878	2	23.5	2	95	0	85	0	46	0	53	1.00
1631666--1631711	24	1.9	24	86	0	65	26	19	15	39	1.91
1633652--1633692	17	2.4	17	87	0	55	80	2	2	14	0.92
1636179--1636210	2	16.0	2	100	0	64	50	0	0	50	1.00
1638109--1638150	21	2.0	21	86	4	59	40	7	2	50	1.43
1638747--1638799	20	2.6	21	79	11	65	58	0	0	41	0.98
1639228--1639284	29	2.0	29	96	0	105	31	17	7	43	1.76
1639849--1639879	14	2.1	14	94	5	53	74	0	0	25	0.82
1639846--1639898	22	2.4	22	79	14	56	69	0	1	28	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641669--1641706	13	2.7	14	84	8	51	52	0	0	47	1.00
1641876--1641920	21	2.1	21	87	0	63	31	2	0	66	1.04
1641886--1641943	31	1.9	30	92	3	98	36	1	0	62	1.06
1643556--1643652	50	1.9	50	89	0	149	26	20	15	37	1.93
1645369--1645511	71	2.0	70	85	5	189	26	6	12	54	1.61
1649745--1649806	23	2.7	22	80	9	70	46	0	0	53	1.00
1652949--1652998	21	2.6	19	84	9	57	46	0	0	54	1.00
1653223--1653259	2	18.5	2	94	0	65	0	51	0	48	1.00
1662004--1662030	3	9.0	3	100	0	54	33	0	0	66	0.92
1662212--1662290	27	2.9	28	82	12	92	43	0	0	56	0.99
1662219--1662311	22	3.8	23	72	21	73	46	0	0	53	1.00
1662224--1662327	16	6.8	16	67	8	56	45	0	0	54	0.99
1662237--1662299	32	2.0	30	88	11	92	39	0	0	60	0.97
1662261--1662371	47	2.3	48	79	16	124	47	0	0	52	1.00
1663305--1663332	2	14.0	2	100	0	56	50	0	0	50	1.00
1664130--1664164	13	2.5	13	90	9	52	54	0	0	45	0.99
1668442--1668559	11	10.9	11	67	17	61	54	0	0	45	0.99
1668456--1668536	33	2.5	31	83	15	103	53	0	0	46	1.00
1668460--1668546	24	3.5	24	70	20	63	52	0	0	47	1.00
1668418--1668503	19	4.3	20	68	12	61	56	0	0	43	0.99
1669258--1669299	19	2.2	19	86	4	57	14	11	4	69	1.34
1669309--1669345	12	3.2	12	81	14	51	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669312--1669339	10	2.8	10	100	0	56	25	0	0	75	0.81
1670206--1670252	22	2.1	22	84	11	60	44	0	2	53	1.12
1672038--1672137	30	3.5	29	68	21	75	56	7	7	30	1.53
1672394--1672507	58	2.0	57	87	5	135	49	12	13	25	1.76
1672394--1672589	57	3.4	58	77	11	172	50	11	9	29	1.70
1678957--1679017	30	2.0	30	87	6	88	52	0	1	45	1.10
1679432--1679476	3	15.0	3	100	0	90	33	0	0	66	0.92
1679520--1679600	20	3.9	20	70	9	72	44	0	0	55	0.99
1679659--1679710	20	2.7	20	85	8	63	30	0	0	69	0.89
1680008--1680040	16	2.2	16	89	10	52	51	0	0	48	1.00

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