genome.fa.s164.2.7.7.80.10.50.1000.12.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: Scaffold164
Parameters: 2 7 7 80 10 50 1000
Length:  2248410

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

This is table  12  of  15  ( 1726 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)
1770582--1770660	20	4.0	19	72	8	68	34	10	12	43	1.76
1770582--1770660	40	2.0	39	85	2	104	34	10	12	43	1.76
1773861--1773908	22	2.2	22	84	0	60	0	12	6	81	0.87
1775366--1775446	39	2.1	39	95	0	144	37	13	16	33	1.87
1775665--1776122	165	2.8	161	80	5	522	44	12	10	32	1.77
1777575--1777920	150	2.3	149	81	7	375	52	6	5	35	1.51
1782441--1782477	19	1.9	19	94	0	65	32	10	10	45	1.74
1782447--1782485	19	2.1	19	90	0	60	38	10	7	43	1.67
1783198--1783240	18	2.4	18	96	0	77	37	0	2	60	1.10
1784003--1784035	2	16.5	2	100	0	66	48	0	0	51	1.00
1784986--1785015	2	15.0	2	100	0	60	50	0	0	50	1.00
1785168--1785206	4	9.8	4	82	0	51	30	48	17	2	1.61
1785168--1785205	8	4.8	8	93	0	58	31	50	15	2	1.58
1786196--1786233	2	19.0	2	100	0	76	0	50	0	50	1.00
1788390--1788426	2	18.5	2	100	0	74	48	0	0	51	1.00
1789648--1789735	41	2.1	41	91	2	149	39	5	20	34	1.76
1790188--1790230	12	3.3	12	83	9	50	58	0	0	41	0.98
1790304--1790365	27	2.3	27	83	8	74	50	3	4	41	1.40
1792967--1793008	21	2.0	21	100	0	84	38	19	19	23	1.93
1794439--1795701	420	3.0	418	90	1	1892	33	13	21	31	1.92
1799203--1799410	79	2.6	79	84	1	256	28	20	12	37	1.90
1799343--1799458	51	2.3	51	86	5	155	31	21	10	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1799264--1799540	130	2.1	129	84	2	358	30	20	12	36	1.90
1799394--1799586	79	2.4	78	82	3	242	29	23	13	34	1.93
1801172--1801246	20	3.8	20	67	10	55	33	16	12	38	1.85
1813190--1813264	20	3.8	20	72	0	69	40	14	12	33	1.83
1814111--1814539	28	15.2	28	80	3	457	22	16	30	30	1.96
1815760--1815833	1	74.0	1	72	0	58	4	1	8	86	0.75
1815760--1815833	11	7.2	10	80	10	71	4	1	8	86	0.75
1815760--1815833	21	3.8	19	84	13	89	4	1	8	86	0.75
1815781--1815830	17	2.9	17	84	3	64	4	0	8	88	0.64
1815760--1815834	38	2.0	38	86	0	105	4	1	9	85	0.78
1815760--1815834	27	2.8	26	79	15	82	4	1	9	85	0.78
1826401--1826477	20	3.8	20	83	6	102	41	12	14	31	1.83
1830061--1830099	14	2.7	15	84	11	55	41	0	5	53	1.23
1831183--1831223	15	2.8	15	75	17	50	7	12	0	80	0.90
1831189--1831243	16	3.3	16	80	16	51	5	16	0	78	0.93
1831542--1831580	4	9.5	4	94	5	69	74	0	0	25	0.82
1832014--1832070	13	3.9	13	76	24	60	35	14	17	33	1.90
1831994--1832094	32	3.1	32	97	1	184	34	11	17	35	1.87
1831992--1832089	19	5.8	18	71	28	90	33	12	17	36	1.87
1832132--1832156	13	1.9	13	100	0	50	32	16	16	36	1.90
1832165--1832293	52	2.5	52	96	0	231	35	17	17	28	1.93
1836725--1836791	37	1.9	35	88	11	102	29	25	11	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1837249--1837274	13	2.0	13	100	0	52	30	15	15	38	1.88
1837313--1837388	21	3.7	21	82	3	109	28	18	11	40	1.86
1837333--1837406	20	3.7	20	81	3	103	31	20	13	35	1.91
1837313--1837406	41	2.3	41	100	0	188	29	19	12	38	1.89
1838023--1838066	21	2.1	21	83	8	54	25	31	4	38	1.76
1839211--1839235	13	1.9	13	100	0	50	32	16	16	36	1.90
1839803--1839849	23	2.0	24	84	12	62	61	19	4	14	1.49
1842395--1842461	37	1.9	35	88	11	102	29	25	11	32	1.92
1842919--1842944	13	2.0	13	100	0	52	30	15	15	38	1.88
1842983--1843058	21	3.7	21	82	3	109	28	18	11	40	1.86
1843003--1843076	20	3.7	20	81	3	103	31	20	13	35	1.91
1842983--1843076	41	2.3	41	100	0	188	29	19	12	38	1.89
1843693--1843736	21	2.1	21	83	8	54	25	31	4	38	1.76
1844881--1844905	13	1.9	13	100	0	50	32	16	16	36	1.90
1845473--1845519	23	2.0	24	84	12	62	61	19	4	14	1.49
1848064--1848130	37	1.9	35	88	11	102	29	25	11	32	1.92
1848588--1848613	13	2.0	13	100	0	52	30	15	15	38	1.88
1848652--1848727	21	3.7	21	82	3	109	28	18	11	40	1.86
1848672--1848745	20	3.7	20	81	3	103	31	20	13	35	1.91
1848652--1848745	41	2.3	41	100	0	188	29	19	12	38	1.89
1851404--1851435	16	2.0	16	100	0	64	75	25	0	0	0.81
1851693--1851741	7	6.6	7	80	19	55	83	4	12	0	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1851694--1851741	15	3.3	14	88	11	62	83	4	12	0	0.79
1851693--1851734	16	2.7	16	85	3	59	85	2	11	0	0.68
1851693--1851741	23	2.1	23	88	7	73	83	4	12	0	0.77
1852764--1853330	131	4.3	130	87	5	772	20	35	13	30	1.91
1852764--1853330	259	2.2	262	87	5	806	20	35	13	30	1.91
1852764--1853343	100	5.9	98	81	9	532	20	35	13	30	1.91
1853350--1853558	32	6.5	31	88	7	294	28	33	17	20	1.95
1853350--1853558	97	2.2	96	89	6	325	28	33	17	20	1.95
1853618--1853685	21	3.2	20	66	25	50	26	27	16	29	1.97
1853546--1854241	43	15.1	43	77	13	656	25	25	17	31	1.97
1853546--1854289	92	8.0	92	93	1	1193	25	25	17	31	1.97
1854100--1854288	52	3.8	52	75	14	191	23	23	19	33	1.97
1855039--1855063	13	1.9	13	100	0	50	36	16	16	32	1.90
1855052--1855101	19	2.6	19	96	0	91	32	12	18	38	1.87
1855144--1855168	13	1.9	13	100	0	50	32	16	16	36	1.90
1860117--1860705	165	3.6	166	83	3	690	49	8	10	31	1.67
1860001--1860705	329	2.1	330	80	8	781	49	8	10	31	1.67
1865052--1865105	20	2.7	20	85	0	63	33	14	11	40	1.82
1866233--1866330	48	2.0	48	98	0	187	30	20	8	40	1.81
1868906--1869022	46	2.8	41	80	14	114	52	5	3	39	1.41
1870419--1870484	29	2.3	29	87	7	91	56	0	1	42	1.08
1871143--1871172	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871362--1871404	17	2.5	17	82	14	52	55	4	0	39	1.20
1871360--1871402	18	2.4	18	84	7	52	55	4	0	39	1.20
1873262--1873301	20	2.1	19	86	13	55	15	12	0	72	1.12
1876228--1876280	3	17.7	3	100	0	106	66	0	0	33	0.92
1876279--1876319	3	13.7	3	100	0	82	34	0	0	65	0.93
1876974--1877009	2	18.0	2	100	0	72	50	0	0	50	1.00
1877151--1877182	11	2.6	13	85	14	50	84	0	15	0	0.63
1877153--1877181	12	2.5	12	94	5	51	86	0	13	0	0.58
1879354--1879403	25	2.0	25	88	0	73	34	8	14	44	1.74
1883795--1883849	26	2.1	26	86	0	74	38	7	10	43	1.68
1887000--1887041	22	1.9	22	90	0	66	47	4	11	35	1.61
1886987--1887049	22	2.8	22	78	2	63	47	7	11	33	1.68
1888035--1888099	26	2.5	28	81	13	70	46	0	1	52	1.10
1888050--1888086	18	2.0	19	89	5	58	51	0	0	48	1.00
1889009--1889062	24	2.2	25	90	3	83	72	1	0	25	0.95
1889009--1889075	21	3.2	20	78	16	64	68	1	0	29	0.98
1889015--1889075	5	12.8	5	78	16	51	67	1	0	31	1.01
1889020--1889073	18	2.9	18	86	13	67	68	0	0	31	0.90
1889015--1889078	28	2.2	29	86	2	94	67	3	0	29	1.06
1889483--1889553	24	3.1	24	70	20	62	49	0	4	46	1.21
1892321--1892347	14	1.9	14	100	0	54	33	0	0	66	0.92
1897263--1897337	20	3.8	20	80	0	96	33	13	12	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1897263--1897340	40	2.0	39	89	2	120	33	12	12	41	1.82
1905628--1905743	51	2.3	52	86	5	157	37	12	20	30	1.89
1905593--1905873	130	2.2	131	80	6	304	35	12	22	29	1.90
1905757--1905924	51	3.3	51	82	0	183	34	11	24	29	1.90
1905626--1906055	181	2.4	181	95	0	763	35	11	23	29	1.90
1905806--1906522	130	5.5	128	75	9	614	34	11	23	30	1.90
1905843--1906001	79	2.0	81	83	6	207	34	11	25	28	1.91
1905936--1906055	51	2.4	51	82	0	150	34	13	24	28	1.93
1906135--1906340	79	2.6	79	83	1	243	33	9	25	31	1.87
1905987--1906390	208	1.9	209	83	2	526	34	10	24	30	1.89

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