genome.fa.s29.2.7.7.80.10.50.1000.12.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   28   29   30   31   32   
          33   34   

This is table  12  of  34  ( 4030 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)
1777321--1777443	23	5.7	22	68	20	82	59	0	0	39	1.09
1777675--1777700	2	13.0	2	100	0	52	50	0	0	50	1.00
1784738--1784771	16	2.1	16	100	0	68	44	14	17	23	1.86
1788402--1788444	21	2.1	20	87	12	61	2	11	2	83	0.83
1788966--1789002	18	2.1	17	90	5	56	59	0	0	40	0.97
1789689--1789747	25	2.4	25	81	13	70	47	3	1	47	1.29
1790100--1790153	20	2.7	20	88	8	74	42	11	14	31	1.81
1790209--1790400	52	3.7	52	85	2	224	31	14	11	42	1.81
1795913--1796021	51	2.1	51	87	0	155	29	19	20	31	1.97
1795925--1796027	51	2.0	51	98	0	197	25	18	19	36	1.94
1799811--1799890	20	3.9	20	73	12	63	36	11	17	35	1.86
1800367--1800499	34	4.0	34	73	17	109	21	28	14	36	1.92
1800416--1800523	30	3.5	30	72	14	101	25	27	15	30	1.96
1800374--1800602	64	3.6	64	77	7	205	21	27	13	37	1.91
1800539--1800601	30	2.1	30	87	0	90	19	23	12	44	1.85
1800636--1801390	32	23.6	31	81	6	712	30	32	17	19	1.95
1800636--1801388	258	2.9	255	81	7	811	30	32	17	19	1.95
1800639--1801406	226	3.4	223	81	6	840	30	31	17	20	1.95
1801459--1801598	50	2.8	51	83	3	167	25	20	15	39	1.91
1801463--1801726	52	4.9	52	76	8	217	24	23	14	37	1.92
1801558--1801887	61	5.6	60	77	9	266	24	24	13	36	1.92
1801512--1801788	113	2.5	113	84	1	349	25	23	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1802466--1802519	20	2.7	20	88	8	74	40	12	16	29	1.86
1808033--1808474	58	7.7	58	75	9	300	45	13	13	27	1.81
1808071--1808169	30	3.4	30	70	21	86	51	11	13	24	1.73
1808033--1808170	29	4.8	28	66	20	79	47	12	13	26	1.78
1808033--1808289	116	2.2	115	85	4	340	46	13	13	26	1.80
1808068--1808301	29	8.2	29	66	19	84	46	14	13	26	1.81
1808310--1808400	29	3.1	29	68	22	82	45	10	12	31	1.76
1812015--1812058	20	2.1	21	88	12	65	40	11	18	29	1.85
1813033--1813422	79	5.0	78	81	5	405	34	14	24	25	1.94
1813042--1813422	158	2.4	157	83	5	450	33	15	24	25	1.95
1813357--1813454	51	1.9	51	85	4	135	36	10	24	28	1.88
1815959--1816540	242	2.4	240	87	2	781	29	18	26	25	1.98
1815959--1816542	61	9.6	61	86	2	739	29	18	26	25	1.98
1817539--1817583	23	1.9	23	86	4	63	6	2	6	84	0.85
1817539--1817585	24	1.9	24	82	4	58	6	2	6	85	0.82
1817538--1817589	27	1.9	27	84	7	70	7	1	7	82	0.91
1819182--1819434	79	3.2	78	81	4	256	31	13	26	27	1.94
1819371--1819487	51	2.3	52	82	5	139	30	9	25	34	1.88
1819288--1819604	131	2.4	130	86	4	417	35	10	24	30	1.88
1819419--1819564	79	1.9	78	85	1	202	33	10	24	30	1.90
1819519--1819628	50	2.2	50	83	3	132	40	10	21	28	1.86
1823162--1823300	51	2.7	52	85	1	181	30	16	14	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1827276--1827316	21	1.9	21	85	5	55	51	7	12	29	1.66
1828727--1828768	21	2.0	21	86	9	59	33	7	0	59	1.25
1828834--1828900	29	2.4	28	80	7	73	40	5	8	44	1.60
1832650--1832699	20	2.5	20	86	0	64	44	14	8	34	1.74
1832614--1832852	71	3.4	71	91	0	379	43	13	14	29	1.83
1832683--1832801	31	3.5	31	69	22	87	44	12	13	29	1.80
1832713--1832842	20	6.0	20	71	18	82	40	14	13	31	1.84
1832716--1832842	40	3.4	40	72	22	148	40	14	13	31	1.84
1840268--1840393	40	3.1	40	73	12	116	8	11	34	44	1.72
1840345--1840404	26	2.5	22	80	20	68	6	10	38	45	1.64
1840202--1840401	106	1.9	106	85	2	276	9	12	34	44	1.75
1841055--1841089	4	9.0	4	87	6	54	20	0	0	80	0.72
1841055--1841090	15	2.3	15	90	4	54	19	0	0	80	0.71
1845971--1846090	52	2.3	52	95	0	213	28	17	19	35	1.94
1845971--1846110	52	2.7	52	86	4	185	29	17	20	33	1.95
1846099--1846123	13	1.9	13	100	0	50	36	16	16	32	1.90
1846187--1846211	13	1.9	13	100	0	50	32	16	16	36	1.90
1849406--1849481	32	2.4	33	84	4	93	44	27	13	14	1.82
1849422--1849481	16	3.7	16	81	2	75	46	26	11	15	1.79
1851862--1851889	2	14.0	2	100	0	56	50	0	0	50	1.00
1853871--1853896	13	2.0	13	100	0	52	38	15	15	30	1.88
1853853--1853916	32	2.0	33	90	3	103	42	15	14	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1856720--1856776	21	2.7	21	97	0	105	33	10	19	36	1.86
1856832--1856899	19	3.9	19	78	21	85	35	11	14	38	1.83
1856853--1856877	13	1.9	13	100	0	50	36	16	16	32	1.90
1856834--1856896	32	2.0	32	96	0	117	34	12	15	36	1.86
1856939--1856964	13	2.0	13	100	0	52	30	15	15	38	1.88
1856919--1856985	33	2.0	33	88	0	98	25	14	16	43	1.86
1859442--1859513	27	2.6	28	87	10	96	22	34	22	20	1.97
1859496--1859717	52	4.3	51	76	7	180	29	24	12	33	1.92
1859705--1859776	28	2.6	28	86	0	90	22	33	19	25	1.97
1859327--1859827	263	1.9	263	87	4	744	27	26	13	31	1.94
1859730--1859932	77	2.6	78	82	3	230	24	30	17	28	1.97
1872332--1872398	15	4.5	15	73	14	50	82	7	10	0	0.85
1872332--1872383	18	3.0	17	78	16	54	84	9	5	0	0.77
1872349--1872382	13	2.5	13	95	4	59	85	11	2	0	0.71
1873366--1874087	59	12.2	59	89	4	975	25	28	20	25	1.99
1874562--1874629	19	3.9	19	74	21	76	35	11	13	39	1.81
1874564--1874626	32	2.0	32	93	0	108	34	12	14	38	1.84
1874669--1874694	13	2.0	13	100	0	52	30	15	15	38	1.88
1874649--1874715	33	2.0	33	88	0	98	25	14	16	43	1.86
1877049--1877441	52	7.5	53	68	15	174	28	25	12	32	1.93
1877163--1877238	27	2.8	27	88	9	102	22	34	22	21	1.97
1877430--1877501	28	2.6	28	86	0	90	22	33	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1879635--1879665	15	2.1	15	93	0	53	48	16	22	12	1.80
1881202--1881468	102	2.6	101	81	9	319	45	3	6	44	1.48
1882573--1882620	16	2.9	16	84	9	62	66	0	18	14	1.25
1882579--1882611	14	2.3	15	89	5	50	69	0	15	15	1.19
1882626--1882661	2	18.0	2	100	0	72	50	0	0	50	1.00
1883513--1883576	16	4.0	17	72	13	64	37	0	1	60	1.06
1884217--1884262	6	7.3	6	92	7	74	2	15	0	82	0.76
1884217--1884262	13	3.7	12	91	8	74	2	15	0	82	0.76
1884217--1884262	19	2.4	19	96	0	83	2	15	0	82	0.76
1886098--1886215	37	3.0	38	77	14	116	54	3	0	41	1.23
1886265--1886324	15	4.0	14	75	16	50	71	1	3	23	1.10
1886276--1886317	21	2.0	21	90	0	66	73	0	2	23	0.94
1887786--1887828	14	3.1	14	81	15	54	46	2	0	51	1.13
1896146--1896211	20	3.7	20	73	26	83	30	18	12	39	1.87
1896146--1896230	13	7.6	12	69	24	69	29	17	12	40	1.87
1896146--1896244	33	3.0	33	94	4	166	31	17	13	38	1.88
1896315--1896339	13	1.9	13	100	0	50	32	16	16	36	1.90
1897136--1897198	19	3.7	18	74	24	64	33	11	17	38	1.85
1897155--1897179	13	1.9	13	100	0	50	36	16	16	32	1.90
1897136--1897205	32	2.2	32	94	0	122	32	11	17	38	1.85
1907290--1907314	13	1.9	13	100	0	50	32	16	16	36	1.90
1907302--1907354	20	2.6	21	82	8	65	41	13	15	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913514--1913571	27	2.0	30	87	9	86	39	17	17	25	1.91
1913560--1913637	33	2.4	33	97	0	147	29	20	14	35	1.92
1913560--1913624	20	3.6	20	69	26	72	29	21	13	35	1.92
1916089--1916113	13	1.9	13	100	0	50	32	16	16	36	1.90
1916101--1916153	20	2.6	21	82	8	65	37	15	16	30	1.90
1916213--1916238	13	2.0	13	100	0	52	38	15	15	30	1.88
1918439--1918489	20	2.6	19	87	12	68	29	17	13	39	1.88
1918521--1918576	19	2.8	19	86	5	67	30	17	16	35	1.92
1919479--1919526	19	2.5	19	86	10	62	43	18	10	27	1.82
1919925--1920149	109	2.1	110	90	2	355	31	5	10	52	1.60

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   28   29   30   31   32   
          33   34