genome.fa.s153.2.7.7.80.10.50.1000.13.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  13  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)
1725238--1725336	27	3.4	27	67	18	72	37	12	5	45	1.63
1725663--1725706	22	2.0	22	95	0	79	43	0	4	52	1.22
1725790--1725859	32	2.2	32	87	5	97	47	0	0	52	1.00
1725794--1725869	30	2.4	31	80	12	75	47	0	1	51	1.09
1725748--1725944	108	1.8	108	88	3	306	43	1	2	53	1.21
1725827--1726176	132	2.8	129	84	8	434	43	2	2	52	1.26
1727289--1727331	23	1.9	23	85	4	61	46	0	2	51	1.13
1727360--1727424	34	1.9	33	87	9	96	56	1	0	41	1.08
1727360--1727418	15	3.7	15	78	22	66	55	1	0	42	1.09
1727430--1727480	17	3.1	17	86	8	61	70	0	0	29	0.87
1728625--1728739	58	2.0	58	92	0	194	31	23	13	32	1.93
1728982--1729031	2	25.0	2	100	0	100	50	0	0	50	1.00
1732037--1732093	5	11.8	5	75	14	57	38	0	0	61	0.96
1732037--1732095	14	4.1	14	81	12	75	38	0	0	61	0.96
1732019--1732085	18	3.7	18	77	11	66	40	0	2	56	1.14
1732053--1732110	29	2.1	28	81	9	66	41	0	1	56	1.09
1733011--1733061	22	2.3	22	76	10	59	56	0	0	43	0.99
1734253--1734322	32	2.2	32	84	5	88	54	4	0	41	1.20
1734302--1734363	27	2.2	27	82	5	79	62	0	0	37	0.95
1734445--1734487	19	2.4	17	80	7	50	55	2	2	39	1.25
1735928--1736019	16	5.4	16	68	21	53	56	2	2	39	1.24
1736473--1736546	30	2.5	30	82	10	89	31	0	5	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1736474--1736546	31	2.4	30	80	13	87	31	0	5	63	1.17
1736521--1736564	17	2.6	18	85	10	65	47	0	0	52	1.00
1736530--1736571	22	1.9	22	85	9	59	52	0	0	47	1.00
1736778--1736810	16	2.0	17	88	5	50	72	0	0	27	0.85
1738885--1739005	6	21.2	6	71	20	57	53	0	3	42	1.17
1738904--1738953	14	3.8	13	77	17	50	60	0	2	38	1.09
1739744--1739778	16	2.3	15	90	9	54	62	0	5	31	1.18
1740380--1740463	11	7.5	11	71	10	62	58	0	5	35	1.23
1740392--1740492	13	8.2	12	70	17	57	58	0	2	37	1.20
1740371--1740470	19	5.3	19	71	15	73	56	0	6	38	1.24
1740381--1740477	36	2.8	33	82	14	108	57	0	5	37	1.21
1740455--1740511	30	1.9	29	86	10	80	54	1	0	43	1.10
1740882--1740916	7	5.0	7	100	0	70	71	0	0	28	0.86
1740909--1740933	5	5.0	5	100	0	50	60	0	0	40	0.97
1740927--1740965	20	2.0	20	84	0	51	43	0	0	56	0.99
1741052--1741085	6	5.7	6	89	0	50	44	2	0	52	1.16
1741115--1741157	21	2.0	22	86	9	61	48	2	0	48	1.14
1741170--1741210	21	2.0	21	85	0	55	58	4	0	36	1.20
1744752--1744776	12	2.1	12	100	0	50	64	0	28	8	1.22
1745277--1745533	141	1.8	141	99	0	505	25	15	19	39	1.91
1746303--1746330	12	2.3	12	100	0	56	46	10	0	42	1.38
1747238--1747296	28	2.1	28	81	6	66	44	1	1	52	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749153--1749192	19	2.1	20	86	9	57	5	30	0	65	1.14
1749673--1749702	14	2.1	14	100	0	60	36	6	13	43	1.70
1750778--1750817	2	20.0	2	100	0	80	50	0	0	50	1.00
1752297--1752336	2	20.0	2	100	0	80	50	0	0	50	1.00
1753510--1753550	3	13.7	3	100	0	82	65	0	0	34	0.93
1754136--1754186	26	2.0	26	84	3	68	60	1	0	37	1.08
1754239--1754263	2	12.5	2	100	0	50	48	0	0	52	1.00
1755640--1755715	33	2.3	32	84	10	100	56	2	1	39	1.21
1755790--1755824	17	2.0	17	88	5	52	20	8	0	71	1.11
1756382--1756440	19	3.0	20	78	12	59	47	1	0	50	1.11
1756405--1756449	23	1.9	24	82	13	58	51	0	2	46	1.13
1757126--1757167	12	3.6	12	81	15	52	64	0	0	35	0.94
1757126--1757168	22	1.9	23	90	4	70	65	0	0	34	0.93
1757712--1757744	2	16.5	2	100	0	66	51	0	0	48	1.00
1760335--1760381	19	2.7	17	78	15	51	38	4	2	55	1.31
1761807--1761844	12	3.2	12	88	7	60	42	0	0	57	0.98
1763749--1763782	13	2.6	13	90	0	50	32	2	0	64	1.08
1764921--1764956	18	2.0	18	100	0	72	50	0	16	33	1.46
1764925--1764963	18	2.2	18	90	4	62	51	2	15	30	1.57
1765982--1766036	16	3.4	17	71	19	53	40	0	1	58	1.09
1766055--1766092	11	3.4	11	88	3	58	34	0	0	65	0.93
1766328--1766378	23	2.2	24	89	3	77	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771787--1771845	26	2.3	25	80	8	73	33	6	15	44	1.73
1772115--1772146	3	10.7	3	100	0	64	31	0	0	68	0.90
1773453--1773522	6	11.8	6	77	8	56	35	2	1	60	1.21
1773571--1773615	24	2.0	21	83	12	54	24	11	8	55	1.63
1773983--1774033	25	2.0	25	100	0	102	31	3	29	35	1.76
1775042--1775083	3	14.0	3	100	0	84	33	0	0	66	0.92
1780520--1780566	22	2.1	23	80	11	62	31	6	0	61	1.21
1780786--1780839	18	3.0	18	86	5	74	70	0	0	29	0.88
1780774--1780824	23	2.3	22	86	3	66	70	1	1	25	1.08
1780787--1780826	12	3.3	12	82	10	55	75	0	0	25	0.81
1781182--1781258	2	39.0	2	88	7	113	46	2	0	50	1.15
1782178--1782223	11	4.1	12	78	13	53	65	0	0	34	0.93
1785727--1785757	2	15.5	2	100	0	62	48	0	0	51	1.00
1786143--1786172	2	15.0	2	92	0	51	50	0	3	46	1.18
1788764--1788804	17	2.5	16	92	4	64	31	0	0	68	0.90
1788765--1788803	12	3.3	12	85	3	53	30	0	0	69	0.89
1791648--1791911	96	2.8	92	82	7	316	43	12	22	20	1.86
1791945--1792147	94	2.2	93	84	4	259	44	14	22	18	1.86
1793724--1793806	32	2.6	31	78	14	80	45	4	4	44	1.46
1794310--1794353	13	3.3	13	81	12	54	45	4	2	47	1.35
1794900--1794952	23	2.3	23	74	6	54	45	3	3	47	1.39
1796770--1796800	2	16.0	2	93	6	55	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1797203--1797241	14	2.8	14	84	7	53	48	2	0	48	1.15
1797614--1797643	2	15.0	2	100	0	60	50	0	0	50	1.00
1797928--1797989	30	2.1	30	82	11	74	48	0	0	51	1.00
1797897--1797976	39	2.1	39	83	4	99	51	0	0	48	1.00
1799202--1799241	2	20.0	2	100	0	80	50	0	0	50	1.00
1800252--1800310	3	19.7	3	100	0	118	67	0	0	32	0.91
1800617--1800670	23	2.5	20	80	11	63	37	0	5	57	1.22
1800665--1800827	72	2.3	68	76	14	154	39	1	1	57	1.17
1800725--1800821	5	19.2	5	68	17	58	39	2	0	58	1.10
1800726--1800783	27	2.1	27	84	6	73	36	3	0	60	1.14
1801579--1801643	18	3.4	19	78	17	64	46	1	0	52	1.10
1801591--1801646	20	2.8	20	84	13	71	46	0	0	53	1.00
1801971--1802017	17	2.8	17	80	3	51	38	0	0	61	0.96
1802008--1802052	19	2.3	20	80	3	56	53	0	0	46	1.00
1803232--1803264	2	16.5	2	87	12	50	48	0	3	48	1.17
1804554--1804628	11	7.2	11	71	14	52	58	0	0	41	0.98
1804554--1804681	30	4.1	32	71	19	92	60	0	0	39	1.03
1804571--1804639	32	2.2	31	87	10	97	55	0	0	44	0.99
1804573--1804625	15	3.5	15	75	17	56	52	0	0	47	1.00
1804556--1804671	15	7.9	15	67	24	52	60	0	0	38	1.03
1804604--1804681	28	2.8	29	74	12	83	60	0	1	38	1.05
1804664--1804715	21	2.5	22	71	9	54	53	3	1	40	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1804930--1804954	13	1.9	13	100	0	50	0	12	0	88	0.53
1805511--1805565	3	18.7	3	81	3	67	60	1	3	34	1.25
1807271--1807331	23	2.6	24	76	7	63	44	0	1	54	1.10
1811822--1811855	13	2.7	13	90	4	52	47	0	0	52	1.00
1815663--1815733	20	3.5	20	86	0	106	32	14	14	39	1.85
1817880--1817955	24	3.0	24	82	5	80	23	32	14	28	1.94
1817911--1818156	97	2.5	97	89	3	379	26	29	12	30	1.93
1820066--1820172	48	2.2	47	87	8	153	34	16	18	29	1.94
1820091--1820168	24	3.2	24	64	7	68	32	12	23	32	1.92
1826530--1826565	2	18.0	2	94	0	63	52	0	0	47	1.00

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