genome.fa.s153.2.7.7.80.10.50.1000.12.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: Scaffold153
Parameters: 2 7 7 80 10 50 1000
Length:  3137677

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  12  of  24  ( 2803 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)
1628783--1628835	17	2.7	19	77	22	56	37	0	3	58	1.16
1628805--1628854	21	2.3	22	83	10	59	40	0	4	56	1.18
1629569--1629602	14	2.2	16	90	10	54	52	2	0	44	1.16
1630309--1630341	17	1.9	17	93	0	57	42	6	9	42	1.61
1630942--1630989	21	2.1	24	85	11	66	29	2	4	64	1.23
1631941--1631980	2	20.0	2	100	0	80	50	0	0	50	1.00
1632439--1632474	2	18.5	2	94	5	65	52	0	0	47	1.00
1633011--1633061	20	2.5	21	83	3	68	58	0	0	41	0.98
1633009--1633067	20	2.9	20	72	7	57	59	0	0	40	0.97
1633510--1633603	47	2.1	44	80	13	102	44	3	0	52	1.17
1633944--1633978	16	2.3	15	90	5	52	37	2	11	48	1.54
1634030--1634128	32	2.8	35	76	14	98	54	0	0	45	0.99
1634081--1634116	16	2.2	17	90	5	56	61	0	0	38	0.96
1634049--1634125	16	4.9	15	71	21	52	54	0	0	45	0.99
1634262--1634321	5	12.6	5	75	10	63	75	0	0	25	0.81
1634262--1634320	14	4.2	14	89	8	93	74	0	0	25	0.82
1639287--1639317	15	2.1	15	100	0	62	54	6	6	32	1.51
1641949--1642021	36	2.0	36	84	5	94	42	0	1	56	1.08
1643792--1643839	25	2.0	25	87	4	71	45	0	2	52	1.12
1643821--1643895	20	4.0	20	77	13	72	38	1	0	60	1.06
1644247--1644293	23	2.0	23	91	0	76	29	0	0	70	0.88
1644247--1644289	12	3.7	12	81	6	61	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644353--1644410	21	2.5	24	83	13	68	58	1	0	39	1.08
1644563--1644628	28	2.2	32	87	12	97	42	0	1	56	1.08
1644618--1644654	15	2.4	16	90	9	67	59	0	0	40	0.97
1644621--1644670	15	3.0	17	86	13	61	58	0	0	42	0.98
1645178--1645265	32	2.7	34	84	5	110	45	0	0	54	0.99
1645178--1645227	15	3.2	15	76	18	57	44	0	0	56	0.99
1645169--1645277	34	3.3	34	80	6	116	43	0	0	55	1.05
1645213--1645295	34	2.4	34	84	4	96	40	0	1	57	1.06
1645272--1645330	18	3.0	20	81	16	63	28	0	3	67	1.06
1645281--1645326	11	4.3	11	78	18	53	30	0	2	67	1.03
1645284--1645332	25	2.0	24	84	4	62	34	0	2	63	1.06
1645291--1645331	20	2.0	20	95	4	73	34	0	2	63	1.08
1645718--1645769	4	13.0	4	87	0	59	40	0	9	50	1.35
1645719--1645765	8	5.9	8	92	0	76	38	0	10	51	1.37
1645718--1645769	12	4.3	12	87	0	77	40	0	9	50	1.35
1646149--1646198	19	2.5	20	83	9	66	58	0	0	42	0.98
1646147--1646211	20	3.2	20	74	10	62	55	0	0	44	0.99
1646147--1646208	19	3.2	19	71	13	54	54	0	0	45	0.99
1646157--1646235	28	2.8	29	77	9	83	54	1	0	44	1.08
1647081--1647139	26	2.2	27	79	11	68	33	3	3	59	1.31
1651354--1651402	27	1.9	25	88	12	73	46	24	4	24	1.69
1655902--1655972	27	2.6	28	88	6	101	46	25	5	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657176--1657219	21	2.1	21	83	8	54	56	0	0	43	0.99
1657157--1657259	34	3.0	35	77	7	86	51	0	0	48	1.00
1657192--1657257	22	3.0	22	72	10	55	48	0	0	51	1.00
1657222--1657270	7	6.6	8	90	6	61	42	0	0	57	0.99
1657636--1657714	22	3.5	22	74	22	58	50	0	0	49	1.00
1658582--1658639	29	1.9	30	83	13	75	46	1	10	41	1.48
1658776--1658816	21	2.0	22	85	9	59	46	0	0	53	1.00
1658803--1658830	13	2.2	13	100	0	56	42	0	0	57	0.99
1658832--1658870	19	2.0	19	85	5	51	64	0	0	35	0.94
1658880--1658970	19	4.5	19	67	20	51	48	3	2	46	1.31
1659016--1659075	15	4.2	14	74	19	61	60	0	0	40	0.97
1659018--1659073	29	2.0	27	86	6	76	60	0	0	39	0.97
1659018--1659071	27	2.0	27	82	10	65	61	0	0	38	0.96
1659311--1659370	10	5.8	10	72	14	50	45	0	0	55	0.99
1659394--1659460	21	3.0	21	79	18	73	58	1	0	40	1.07
1659413--1659461	26	1.9	25	87	4	71	59	2	0	38	1.09
1659561--1659648	32	2.8	33	80	11	78	52	0	0	47	1.00
1659606--1659658	18	3.2	18	73	24	53	50	0	0	49	1.00
1660470--1660675	60	3.4	60	76	12	213	22	21	10	44	1.83
1662049--1662134	45	1.9	45	90	4	138	12	16	8	62	1.52
1662125--1662160	17	2.1	17	100	0	72	13	22	22	41	1.89
1668098--1668130	16	1.9	17	88	11	50	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669142--1669168	3	9.0	3	100	0	54	33	0	0	66	0.92
1669589--1669632	21	2.0	22	82	4	54	63	0	2	34	1.07
1677547--1677611	24	2.7	24	72	15	62	27	12	15	44	1.82
1681560--1681587	13	2.2	13	100	0	56	39	17	14	28	1.89
1681651--1681675	13	1.9	13	100	0	50	32	16	16	36	1.90
1687179--1687276	51	1.9	51	91	4	162	30	22	9	37	1.85
1687230--1687557	79	4.1	80	78	6	319	28	23	12	34	1.92
1687101--1687369	130	2.1	128	84	7	357	28	21	13	36	1.92
1691929--1692005	28	2.8	28	82	7	77	25	18	31	24	1.97
1691990--1692158	52	3.2	52	80	8	175	32	12	24	30	1.92
1692142--1692215	27	2.7	27	85	4	85	24	20	33	21	1.97
1691924--1692327	212	1.9	212	88	3	616	31	13	26	28	1.93
1692204--1692322	51	2.3	53	85	7	154	33	11	22	31	1.90
1694691--1694716	13	2.0	13	100	0	52	38	15	15	30	1.88
1694756--1694823	19	3.9	18	73	23	74	36	14	13	35	1.85
1694759--1694821	32	2.0	32	93	0	108	34	15	14	34	1.88
1698959--1699005	18	2.5	20	80	16	55	36	0	2	61	1.08
1700882--1700907	2	13.0	2	100	0	52	50	0	0	50	1.00
1701996--1702048	21	2.7	19	72	16	54	62	0	1	35	1.06
1702287--1702320	13	2.5	14	85	9	52	61	0	2	35	1.11
1707923--1707947	12	2.1	12	100	0	50	92	8	0	0	0.40
1708609--1708646	17	2.2	18	85	4	51	39	0	2	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709053--1709083	11	2.8	11	95	0	53	67	0	0	32	0.91
1709389--1709418	14	2.1	14	93	0	51	70	0	0	30	0.88
1709717--1709783	23	2.9	23	68	18	57	64	0	0	35	0.94
1709802--1709856	22	2.5	22	87	3	74	72	1	1	23	1.04
1709802--1709846	20	2.3	20	79	20	60	71	0	2	26	0.98
1709802--1709860	11	5.4	11	73	11	50	72	1	1	23	1.02
1710170--1710306	26	5.1	27	73	17	101	54	2	0	43	1.12
1710181--1710316	18	7.9	17	68	23	65	55	1	0	42	1.08
1710233--1710307	20	3.9	19	75	16	66	54	0	0	45	0.99
1710181--1710310	32	3.8	33	71	21	99	55	1	0	43	1.09
1710181--1710316	73	1.9	72	82	10	170	55	1	0	42	1.08
1710169--1710320	29	5.7	28	73	20	114	55	1	0	42	1.11
1710963--1711022	19	3.2	19	73	21	63	66	0	0	33	0.92
1710946--1711025	29	2.8	30	74	10	80	60	0	1	38	1.05
1711624--1711660	19	1.9	19	88	0	56	64	0	5	29	1.15
1713434--1713495	6	10.0	6	77	6	61	58	1	0	40	1.08
1713757--1713782	2	13.0	2	100	0	52	50	0	0	50	1.00
1715309--1715366	25	2.4	24	82	5	73	41	0	0	58	0.98
1715439--1715469	16	1.9	16	100	0	62	25	3	19	51	1.62
1715507--1715550	23	2.0	23	90	4	72	61	0	0	38	0.96
1715694--1715728	11	3.0	12	83	8	54	31	0	0	68	0.90
1717226--1717275	15	3.5	14	81	13	57	48	0	4	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1717237--1717270	13	2.8	12	91	8	52	50	0	2	47	1.16
1720531--1720555	11	2.3	11	100	0	50	44	16	8	32	1.76
1721250--1721360	39	3.2	38	65	32	102	50	0	7	42	1.30
1721221--1721367	66	2.2	66	92	1	240	51	0	6	41	1.28
1721462--1721490	15	1.9	15	100	0	58	31	0	0	68	0.89
1721457--1721496	20	2.0	20	85	9	55	32	0	0	67	0.91
1721459--1721508	26	1.9	26	84	8	66	34	0	0	66	0.92
1721462--1721508	20	2.3	21	74	3	51	36	0	0	63	0.94
1721497--1721550	22	2.5	22	84	3	65	53	0	0	46	1.00
1725167--1725365	61	3.3	61	97	0	371	36	10	4	48	1.56

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24