genome.fa.s228.2.7.7.80.10.50.1000.12.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: Scaffold228
Parameters: 2 7 7 80 10 50 1000
Length:  4123243

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   25   26   27   

This is table  12  of  27  ( 3133 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)
1678071--1678175	16	6.1	16	67	20	68	36	7	12	43	1.71
1678063--1678199	72	1.9	72	90	3	222	37	8	11	42	1.73
1678068--1678243	72	2.4	72	83	7	171	39	7	11	42	1.69
1678926--1679140	107	2.0	107	97	0	403	33	11	24	30	1.91
1688219--1688277	31	1.9	31	85	0	82	42	6	10	40	1.65
1689313--1689385	10	6.8	11	70	26	50	41	1	1	56	1.16
1689364--1689441	5	16.8	5	74	12	53	42	1	0	56	1.07
1689654--1689710	16	3.8	16	72	13	57	57	1	3	36	1.26
1693216--1693251	2	18.0	2	100	0	72	50	0	0	50	1.00
1694169--1694227	21	2.9	20	79	2	64	30	13	5	50	1.63
1696079--1696147	35	2.0	35	83	11	88	23	20	4	52	1.64
1697199--1697260	23	2.7	24	79	16	69	62	0	1	35	1.05
1698150--1698183	15	2.3	15	89	0	50	32	0	0	67	0.91
1698231--1698320	5	18.0	5	69	17	62	40	2	2	55	1.24
1698472--1698517	13	3.5	13	82	11	67	50	2	0	47	1.13
1698694--1698738	11	4.1	10	79	20	54	2	13	2	82	0.86
1698692--1698740	23	2.1	23	88	7	73	2	16	2	79	0.92
1699240--1699271	2	17.0	2	87	12	50	46	0	0	53	1.00
1699451--1699598	7	20.6	7	75	14	97	70	9	16	4	1.29
1699423--1699592	14	11.8	14	72	14	105	70	8	15	5	1.32
1701615--1701671	26	2.3	25	79	11	64	59	1	1	36	1.18
1716358--1716526	30	5.6	31	80	6	177	26	29	13	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716359--1716530	31	5.7	30	80	10	163	26	30	12	30	1.93
1716358--1716526	61	2.8	60	85	6	207	26	29	13	31	1.93
1716570--1716750	32	5.7	32	84	11	219	22	25	12	39	1.89
1716599--1716750	61	2.4	63	84	11	197	21	24	11	42	1.86
1716534--1716751	30	6.9	30	77	11	181	22	26	11	39	1.88
1716570--1716963	33	12.7	33	72	16	202	24	26	10	37	1.88
1716535--1716803	96	2.8	94	86	7	296	22	26	11	40	1.87
1716845--1716905	27	2.3	27	80	5	70	27	27	8	36	1.85
1716693--1716923	60	3.8	60	74	8	225	25	26	8	38	1.85
1716847--1717010	90	1.8	89	82	1	211	26	30	9	32	1.89
1716994--1717371	31	12.0	31	77	7	332	31	28	16	23	1.96
1717000--1717371	32	11.8	31	76	10	196	31	28	16	23	1.96
1716995--1717329	64	5.3	62	76	13	276	31	28	16	24	1.96
1716995--1717315	95	3.4	93	82	8	382	30	28	16	24	1.97
1717539--1718046	52	9.8	51	76	4	299	23	22	17	35	1.95
1717539--1718046	104	4.9	104	76	4	391	23	22	17	35	1.95
1717541--1717842	156	1.9	157	82	3	376	24	23	17	34	1.96
1717554--1717895	104	3.3	104	84	0	414	23	24	17	34	1.96
1718699--1718752	20	2.7	20	85	8	74	42	11	14	31	1.81
1718798--1718875	20	3.9	20	72	0	75	30	8	14	46	1.75
1718795--1718872	40	2.0	40	89	0	120	33	8	15	42	1.78
1721322--1721444	45	2.8	44	75	18	130	30	26	11	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728221--1728277	19	2.9	19	89	2	87	31	17	15	35	1.92
1734532--1734570	13	3.0	13	88	0	60	30	12	17	38	1.88
1735004--1735046	20	2.0	22	86	8	63	20	39	27	11	1.88
1736404--1736508	53	2.0	53	100	0	210	42	5	19	32	1.74
1737185--1737248	20	3.5	20	70	27	70	35	12	15	35	1.85
1737166--1737228	13	5.3	13	75	21	75	34	14	14	36	1.86
1737168--1737250	33	2.5	33	96	0	148	34	12	15	37	1.85
1737547--1737647	32	3.2	31	92	5	166	33	11	17	36	1.87
1737577--1737639	19	3.6	19	74	24	75	33	12	17	36	1.88
1737564--1737620	13	3.9	13	74	24	51	35	12	15	36	1.85
1737707--1737853	52	2.8	52	90	2	224	35	16	17	31	1.92
1751717--1751820	13	7.9	12	76	16	84	81	11	4	1	0.92
1751716--1751820	9	11.9	9	74	13	58	80	12	4	1	0.94
1751720--1751828	41	2.6	41	80	12	114	80	12	4	1	0.94
1751716--1751829	54	2.1	54	82	9	144	80	13	4	1	0.93
1753248--1753440	29	6.7	28	76	12	160	30	32	17	19	1.95
1753258--1753414	58	2.7	57	77	8	183	29	31	19	19	1.96
1753467--1753717	87	2.8	86	80	4	261	28	23	18	29	1.98
1753822--1754033	47	4.2	47	68	16	147	23	26	16	33	1.96
1753739--1754096	154	2.3	154	95	0	628	23	25	16	34	1.95
1753746--1754038	52	5.8	51	70	12	176	23	25	17	33	1.96
1754658--1754723	19	3.9	18	74	25	72	33	12	16	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1754680--1754704	13	1.9	13	100	0	50	36	16	16	32	1.90
1754663--1754729	32	2.1	32	97	0	125	34	11	16	37	1.85
1754809--1754937	52	2.5	52	94	0	231	34	17	18	29	1.94
1763354--1763395	13	3.2	13	76	10	50	2	4	4	88	0.71
1763364--1763404	20	2.0	21	90	4	66	2	4	7	85	0.81
1763362--1763395	14	2.5	13	86	9	50	0	2	5	91	0.51
1763587--1763616	16	1.9	15	93	6	51	30	16	0	53	1.44
1764094--1764144	16	3.2	16	77	0	57	5	19	35	39	1.76
1764094--1764156	32	2.0	32	81	6	74	9	19	31	39	1.83
1769336--1769387	20	2.6	19	85	11	61	32	17	15	34	1.91
1769774--1769898	19	7.6	18	66	29	73	36	12	14	36	1.84
1769772--1769906	32	4.2	32	97	0	243	34	12	15	37	1.85
1769793--1769879	13	5.8	13	72	27	66	35	13	14	35	1.86
1769951--1769978	13	2.2	13	100	0	56	28	14	17	39	1.89
1769984--1770114	52	2.5	52	93	0	226	35	18	16	29	1.93
1778891--1779007	51	2.3	51	87	0	180	31	10	26	31	1.90
1778940--1779087	79	1.9	79	84	0	197	29	13	28	29	1.94
1779023--1779138	51	2.3	51	87	0	169	29	12	27	30	1.93
1779074--1779372	79	3.8	79	83	7	369	31	15	26	26	1.96
1778703--1779196	260	1.9	259	81	6	595	34	11	24	29	1.90
1778731--1779217	130	3.8	128	76	8	473	33	12	25	28	1.93
1779098--1779324	76	2.9	76	88	5	341	32	16	25	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779308--1779484	51	3.5	50	83	9	207	33	11	27	27	1.92
1781776--1781941	20	8.8	19	73	23	113	40	14	16	28	1.88
1781874--1781903	13	2.3	13	94	0	51	40	10	16	33	1.82
1783853--1783903	2	25.5	2	91	0	84	49	0	0	50	1.00
1793335--1793375	15	2.7	16	85	7	50	56	0	0	43	0.99
1793827--1793875	12	4.5	11	73	21	50	46	2	2	48	1.25
1796096--1796125	11	2.6	12	89	10	53	60	0	6	33	1.23
1801784--1802078	118	2.5	118	81	1	331	34	18	15	30	1.93
1802554--1802587	2	17.0	2	100	0	68	50	0	0	50	1.00
1802629--1802658	2	15.5	2	93	6	53	50	0	0	50	1.00
1805662--1805895	50	4.7	50	85	3	285	31	12	22	34	1.91
1805664--1805894	99	2.3	100	86	4	308	31	12	22	33	1.91
1810276--1810548	50	5.5	50	95	0	483	30	19	23	27	1.98
1812787--1812839	6	8.3	6	80	15	54	81	0	16	1	0.79
1812781--1812819	12	3.3	12	86	13	55	84	0	10	5	0.76
1812787--1812839	17	3.1	17	84	13	65	81	0	16	1	0.79
1812787--1812849	22	2.8	22	85	9	83	79	0	19	1	0.82
1812786--1812849	7	9.3	7	85	10	62	79	0	18	1	0.81
1812799--1812846	15	3.4	14	81	13	55	79	0	20	0	0.74
1813330--1813362	2	16.5	2	100	0	66	48	0	0	51	1.00
1813918--1813955	2	19.0	2	94	0	67	52	0	0	47	1.00
1814510--1814585	24	3.0	25	72	20	68	21	6	23	48	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814533--1814578	24	1.9	24	91	8	76	19	8	28	43	1.80
1819011--1819093	28	3.0	28	100	0	166	18	10	21	49	1.77
1820263--1820294	2	16.5	2	93	6	57	50	0	0	50	1.00
1820527--1820574	19	2.5	19	75	0	51	39	0	0	60	0.97
1820526--1820566	22	1.9	21	85	5	55	36	0	0	63	0.95
1820539--1820579	21	2.0	21	85	9	57	39	0	0	60	0.96
1823600--1823630	16	2.0	15	93	6	53	19	0	3	77	0.90
1824755--1824812	16	3.6	15	81	11	53	12	24	36	27	1.91
1825328--1825367	20	2.0	21	90	5	64	17	2	2	77	0.99
1825788--1826488	43	16.5	43	85	2	722	37	17	28	15	1.92

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   25   26   27