genome.fa.s79.2.7.7.80.10.50.1000.13.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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   

This is table  13  of  26  ( 3105 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)
1765422--1765466	9	4.6	9	80	20	54	17	0	40	42	1.50
1765414--1765461	22	2.2	22	100	0	96	20	0	43	35	1.52
1770139--1770305	34	4.9	34	97	0	307	19	0	38	41	1.52
1770164--1770266	25	4.4	23	67	26	65	18	0	40	40	1.51
1774219--1774297	25	3.4	25	75	20	80	40	0	5	54	1.22
1774252--1774292	20	2.0	20	95	0	73	36	0	2	60	1.10
1775020--1775055	18	2.0	18	88	0	54	58	5	0	36	1.22
1775468--1775492	12	2.1	12	100	0	50	92	0	8	0	0.40
1778838--1778922	16	4.8	18	69	24	56	54	0	0	45	1.00
1778887--1778943	12	4.3	13	76	14	55	61	0	0	38	0.96
1779175--1779219	5	9.2	5	86	13	51	82	0	17	0	0.68
1781332--1781392	18	3.2	17	73	24	50	27	4	0	67	1.11
1781780--1781880	43	2.5	42	82	14	122	40	0	5	52	1.32
1781822--1781879	22	2.7	22	73	7	57	41	0	3	55	1.17
1781831--1781912	26	3.3	26	76	17	84	43	0	2	53	1.13
1782100--1782139	21	2.0	20	90	5	62	32	0	0	67	0.91
1782070--1782161	47	2.0	47	82	8	116	43	0	0	56	0.99
1787123--1787174	25	2.1	23	82	10	59	28	7	1	61	1.34
1788043--1788089	2	24.0	2	82	4	60	53	4	0	42	1.20
1791119--1791199	32	2.5	32	85	0	117	49	8	3	38	1.51
1791504--1791528	12	2.1	12	100	0	50	40	8	8	44	1.63
1792436--1792524	46	1.9	46	90	0	142	43	1	1	53	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1792744--1792779	15	2.5	15	90	4	56	52	0	0	47	1.00
1793325--1793369	16	2.7	17	79	6	56	60	2	0	37	1.09
1793355--1793379	13	1.9	13	100	0	50	76	0	0	24	0.80
1794942--1794976	3	11.7	3	100	0	70	34	0	0	65	0.93
1795798--1795869	21	3.5	21	70	24	55	59	2	0	37	1.12
1796210--1796253	21	2.1	21	83	8	54	61	2	2	34	1.21
1796421--1796445	2	12.5	2	100	0	50	48	0	0	52	1.00
1796614--1796668	25	2.2	25	90	0	83	54	0	0	45	0.99
1798581--1798630	25	2.0	25	96	0	91	46	24	10	20	1.81
1800629--1800684	22	2.4	24	79	5	62	35	7	10	46	1.66
1802101--1802146	16	2.9	16	100	0	92	17	19	17	45	1.85
1802103--1802152	8	6.2	8	73	17	50	20	20	18	42	1.90
1805663--1805724	27	2.3	28	81	10	76	27	4	12	54	1.58
1806267--1806301	17	2.0	18	88	5	54	77	0	0	22	0.78
1806276--1806389	43	2.5	45	78	17	128	62	0	0	37	0.96
1806314--1806402	6	13.0	7	70	25	66	60	0	0	39	0.97
1806315--1806404	28	3.1	30	72	13	55	61	0	0	38	0.96
1806265--1806404	8	17.0	8	68	23	53	62	0	0	37	0.95
1806273--1806414	33	4.2	36	74	15	124	61	0	0	38	0.96
1806265--1806421	19	7.9	19	70	13	77	61	0	0	38	0.96
1807724--1807767	16	2.6	17	78	3	54	38	9	4	47	1.56
1808039--1808083	22	2.0	23	86	4	65	28	4	2	64	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808681--1808717	3	12.3	3	100	0	74	67	0	0	32	0.91
1809045--1809069	7	3.6	7	100	0	50	68	0	0	32	0.90
1809422--1809448	2	13.5	2	100	0	54	48	0	0	51	1.00
1809586--1809633	2	24.0	2	100	0	96	50	0	50	0	1.00
1811057--1811095	2	20.0	2	94	5	71	48	0	0	51	1.00
1812313--1812340	14	2.0	14	100	0	56	42	0	0	57	0.99
1813098--1813176	19	3.9	21	71	22	60	65	1	1	31	1.08
1813106--1813175	11	6.6	11	75	20	53	65	1	0	32	1.01
1813091--1813166	33	2.3	34	81	6	93	67	1	1	30	1.07
1814407--1814442	19	1.9	19	88	5	56	50	0	0	50	1.00
1816545--1816596	5	10.2	5	78	10	52	36	0	0	63	0.95
1816539--1816620	22	3.8	21	80	9	85	35	1	0	63	1.02
1818889--1818919	14	2.2	14	94	0	53	48	0	0	51	1.00
1819139--1819236	18	5.1	20	68	20	66	63	1	0	35	1.02
1819141--1819203	25	2.5	25	78	17	67	68	0	0	31	0.90
1819139--1819224	29	3.1	29	76	17	94	65	1	0	33	1.01
1819150--1819183	15	2.1	16	89	10	52	73	0	0	26	0.83
1819660--1819722	28	2.2	29	88	5	92	38	1	1	58	1.17
1824401--1824432	3	11.0	3	93	6	57	68	0	0	31	0.90
1825236--1825265	2	15.0	2	92	0	51	46	0	3	50	1.18
1825537--1825588	27	2.0	26	84	3	68	23	11	25	40	1.88
1825655--1825688	14	2.4	14	90	0	50	50	0	5	44	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1826909--1826948	3	13.3	3	94	0	71	35	2	0	62	1.09
1831073--1831105	2	16.5	2	93	0	57	45	0	0	54	0.99
1835144--1835205	19	3.0	20	88	6	90	64	0	0	35	0.94
1835273--1835322	23	2.1	24	85	3	66	68	0	2	30	1.01
1835714--1835761	17	2.9	17	75	12	55	56	0	0	43	0.99
1835790--1835847	25	2.5	23	77	20	59	48	1	12	37	1.51
1835807--1835847	21	2.0	21	85	0	55	48	2	12	36	1.54
1838183--1838215	17	1.9	17	88	11	50	39	3	0	57	1.14
1839312--1839348	2	18.5	2	100	0	74	48	0	0	51	1.00
1839348--1839384	2	18.5	2	94	0	65	2	0	45	51	1.15
1840622--1840651	2	15.0	2	100	0	60	50	0	0	50	1.00
1841745--1841773	3	9.7	3	100	0	58	68	0	0	31	0.89
1842960--1843005	3	15.3	3	95	0	83	32	2	0	65	1.05
1843181--1843222	20	2.1	21	86	8	61	52	0	0	47	1.00
1856375--1856403	8	3.8	8	90	9	51	75	0	0	24	0.80
1856697--1856747	15	3.2	15	72	22	50	54	0	1	43	1.11
1856696--1856749	16	3.3	16	73	21	58	55	0	1	42	1.10
1856754--1856805	22	2.2	22	86	10	68	61	0	1	36	1.07
1856735--1856800	6	11.8	6	73	15	61	60	0	3	36	1.12
1856756--1856800	11	4.1	11	80	11	56	62	0	2	35	1.08
1857750--1857803	4	14.2	4	75	11	51	77	1	20	0	0.86
1857752--1857805	22	2.4	23	87	9	76	79	1	18	0	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1858543--1858655	58	1.9	59	83	5	149	31	11	6	50	1.63
1858785--1858830	11	4.2	11	77	0	56	82	0	15	2	0.76
1858780--1858830	8	6.2	8	76	13	50	80	0	17	1	0.81
1859852--1859892	17	2.5	17	84	7	59	43	0	0	56	0.99
1860027--1860083	29	1.9	29	82	10	71	40	1	0	57	1.09
1860656--1860711	27	2.1	27	81	15	64	53	1	0	44	1.11
1861066--1861109	22	2.0	23	81	4	54	54	2	2	40	1.25
1862065--1862103	12	3.3	12	89	7	62	64	0	0	35	0.94
1865068--1865127	32	1.9	31	83	10	77	41	5	1	51	1.33
1869492--1869541	15	3.3	15	85	0	64	56	0	2	42	1.11
1870395--1870436	14	3.0	14	75	10	50	30	0	2	66	1.04
1870395--1870452	28	2.0	29	87	12	84	34	0	3	62	1.12
1870391--1870456	28	2.4	27	80	14	82	37	0	3	59	1.13
1873404--1873447	2	22.0	2	100	0	88	50	0	0	50	1.00
1874092--1874121	14	2.2	14	94	5	53	73	0	0	26	0.84
1874324--1874364	18	2.3	18	84	12	50	53	7	9	29	1.60
1875200--1875237	19	2.0	19	89	0	58	47	0	0	52	1.00
1875840--1875887	20	2.5	19	83	12	62	62	0	0	37	0.95
1877330--1877354	3	8.3	3	100	0	50	32	0	0	68	0.90
1883158--1883216	30	2.0	30	93	0	100	30	13	35	20	1.91
1888366--1888427	30	2.1	30	93	0	106	29	12	37	20	1.90
1890586--1890674	18	4.9	18	75	9	67	20	15	23	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891267--1891292	2	13.0	2	100	0	52	50	0	0	50	1.00
1892357--1892402	21	2.2	21	84	7	58	4	28	0	67	1.10
1892443--1892520	30	2.6	30	86	6	106	8	35	0	55	1.32
1895196--1895227	2	16.0	2	100	0	64	50	0	0	50	1.00
1896566--1896612	2	25.0	2	87	12	73	51	0	0	48	1.00
1902033--1902093	24	2.4	27	83	13	92	49	0	0	50	1.00
1902019--1902108	24	3.4	27	72	20	75	46	0	0	53	1.00
1902097--1902147	24	2.2	23	82	3	57	43	5	0	50	1.26
1902265--1902307	21	2.0	21	82	8	52	34	0	2	62	1.08
1902537--1902651	34	3.6	32	77	18	116	50	0	0	49	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   25   26