genome.fa.s64.2.7.7.80.10.50.1000.9.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   35   36   37   38   39   40   41   42   43   44   45   

This is table  9  of  45  ( 5312 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)
1687015--1687261	106	2.3	108	86	4	322	42	13	7	36	1.73
1687026--1687261	53	4.4	53	85	5	219	42	13	7	36	1.73
1687123--1687412	150	1.9	151	85	0	402	46	11	5	36	1.63
1688955--1689175	34	6.5	33	81	9	257	41	25	7	25	1.82
1688955--1689175	102	2.2	101	87	1	334	41	25	7	25	1.82
1693559--1693779	34	6.5	34	81	10	249	40	25	7	26	1.82
1693562--1693779	68	3.2	67	83	3	276	40	25	7	26	1.82
1693561--1693779	102	2.2	101	87	3	323	41	25	7	26	1.82
1704039--1704072	4	8.0	4	87	12	50	50	0	0	50	1.00
1704039--1704072	9	4.0	8	88	11	50	50	0	0	50	1.00
1704039--1704072	13	2.6	13	95	0	59	50	0	0	50	1.00
1704460--1704507	20	2.5	20	89	3	71	45	2	6	45	1.40
1705129--1705188	21	3.0	20	75	4	57	53	0	3	43	1.17
1707570--1707778	107	2.0	107	96	0	382	30	18	19	32	1.95
1708385--1708457	36	2.0	36	97	0	137	47	15	28	8	1.73
1711912--1711989	35	2.3	35	93	2	140	38	16	8	35	1.80
1711859--1712037	88	2.0	88	92	2	297	37	15	9	37	1.80
1711949--1712718	56	14.9	53	76	15	433	41	15	11	31	1.82
1712005--1712201	98	2.0	98	94	0	349	42	15	10	31	1.81
1711952--1712816	154	5.6	154	76	13	834	41	14	10	32	1.81
1712167--1712662	98	4.9	98	91	4	733	42	15	10	31	1.81
1712461--1712816	112	3.3	110	87	6	468	42	13	12	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712628--1712859	98	2.4	98	90	0	347	42	12	9	35	1.74
1712823--1712961	53	2.5	53	77	4	134	51	7	1	39	1.38
1713666--1713690	2	12.5	2	100	0	50	48	0	0	52	1.00
1716033--1716060	2	14.0	2	100	0	56	50	0	0	50	1.00
1716195--1716219	13	1.9	13	100	0	50	44	0	0	56	0.99
1717412--1717450	2	19.5	2	100	0	78	48	0	0	51	1.00
1718839--1718920	38	2.1	40	84	8	107	48	0	1	50	1.08
1720433--1720484	2	26.0	2	92	0	86	46	0	3	50	1.20
1730120--1730154	2	17.5	2	100	0	70	51	0	48	0	1.00
1730712--1730753	22	1.9	21	85	9	57	28	2	0	69	1.01
1733021--1733055	17	2.1	16	89	5	52	48	8	0	42	1.33
1733607--1733657	21	2.5	20	81	15	59	58	1	0	39	1.09
1734175--1734225	15	3.2	16	75	20	54	43	0	0	56	0.99
1734163--1734242	32	2.5	31	77	16	92	38	0	0	61	0.96
1734419--1734453	4	8.8	4	93	0	61	51	0	0	48	1.00
1736790--1736835	18	2.6	18	79	6	58	56	0	2	41	1.11
1736887--1737008	63	1.9	63	89	0	190	31	16	9	43	1.79
1737559--1737625	32	2.1	32	100	0	134	26	17	14	40	1.89
1738709--1738746	18	2.2	18	85	4	51	7	10	7	73	1.24
1739051--1739230	85	2.1	85	94	1	315	32	10	15	41	1.80
1742458--1742486	13	2.2	13	100	0	58	44	6	20	27	1.77
1742654--1742682	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742682--1742708	2	13.5	2	100	0	54	51	0	48	0	1.00
1743020--1743045	2	13.0	2	100	0	52	50	0	0	50	1.00
1745933--1745980	25	1.9	25	83	8	62	54	4	4	37	1.39
1747934--1747967	17	2.0	17	88	0	50	47	0	0	52	1.00
1750006--1750049	21	2.1	21	83	8	54	38	6	0	54	1.27
1753104--1753129	9	2.9	9	100	0	52	53	0	46	0	1.00
1761677--1761768	31	3.0	31	76	12	100	32	20	16	30	1.95
1770057--1770095	5	7.8	5	94	5	62	84	15	0	0	0.62
1771498--1771523	12	2.2	12	100	0	52	92	0	7	0	0.39
1771501--1771525	13	1.9	13	100	0	50	92	0	8	0	0.40
1777467--1777506	2	20.0	2	100	0	80	50	0	0	50	1.00
1777893--1777923	3	10.3	3	100	0	62	32	0	0	67	0.91
1779297--1779330	17	2.0	17	100	0	68	47	11	5	35	1.65
1784062--1784093	2	16.0	2	100	0	64	50	0	0	50	1.00
1784952--1785012	32	2.0	30	84	12	79	63	1	3	31	1.20
1786084--1786134	20	2.7	20	82	14	56	35	1	0	62	1.06
1790304--1790338	13	2.6	14	86	9	54	51	0	0	48	1.00
1791643--1791676	5	7.0	5	93	6	61	41	0	0	58	0.98
1791647--1791676	9	3.2	9	95	4	51	40	0	0	60	0.97
1796521--1796557	15	2.5	15	90	0	56	40	0	2	56	1.13
1798419--1798458	21	1.9	21	84	0	53	50	0	2	47	1.14
1807975--1808051	22	3.5	22	75	8	68	45	2	0	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808420--1808452	14	2.3	15	89	5	50	57	3	0	39	1.14
1808890--1808971	16	5.2	16	76	15	75	54	0	0	45	0.99
1809260--1809321	32	2.0	30	84	12	81	48	0	0	51	1.00
1813276--1813336	26	2.3	26	80	0	68	44	4	6	44	1.51
1821194--1821232	20	2.0	20	90	10	62	43	0	0	56	0.99
1822084--1822143	2	30.0	2	89	0	93	46	1	3	48	1.28
1822089--1822152	8	8.2	8	84	6	69	45	1	4	48	1.32
1828762--1828812	21	2.3	24	74	22	65	37	9	21	31	1.86
1828768--1828810	21	2.1	20	91	4	68	32	11	23	32	1.90
1828993--1829060	14	4.9	13	73	21	50	60	2	2	33	1.27
1832476--1832565	45	2.0	45	97	0	171	27	13	18	40	1.88
1840993--1841053	26	2.3	26	83	5	88	60	0	0	39	0.97
1841940--1841988	20	2.4	18	78	21	53	77	4	2	16	1.01
1841955--1841999	15	3.0	15	78	12	56	77	2	6	13	1.05
1841951--1841997	20	2.3	20	89	7	69	76	4	4	14	1.09
1862144--1862197	17	3.0	17	86	8	63	38	0	0	61	0.96
1862166--1862220	24	2.5	22	83	13	76	34	0	0	65	0.93
1862146--1862219	17	3.9	17	69	26	51	36	0	0	63	0.95
1864148--1864179	2	16.0	2	100	0	64	50	0	0	50	1.00
1865145--1865201	21	2.8	20	80	14	64	43	0	0	56	0.99
1865139--1865250	11	9.5	12	67	22	51	40	0	0	58	1.11
1865148--1865247	20	4.8	20	71	20	71	41	1	1	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868938--1868988	2	25.5	2	100	0	102	49	0	50	0	1.00
1870948--1870978	2	15.5	2	93	0	53	54	0	45	0	0.99
1876132--1876192	15	4.1	15	76	16	63	47	0	0	52	1.00
1876132--1876192	30	2.0	30	84	6	79	47	0	0	52	1.00
1882006--1882058	21	2.6	21	82	8	65	39	1	0	58	1.09
1882041--1882127	33	2.8	31	73	11	81	52	1	3	42	1.25
1885851--1885881	16	1.9	16	93	0	53	35	0	0	64	0.94
1886286--1886322	17	2.1	18	90	5	58	56	0	0	43	0.99
1886776--1886809	2	17.0	2	93	0	59	2	0	47	50	1.16
1887572--1887690	61	2.0	61	93	0	202	36	13	18	31	1.89
1887830--1887862	3	11.0	3	93	0	57	3	63	0	33	1.10
1888306--1888399	46	2.0	46	93	0	161	34	15	18	31	1.92
1888541--1888623	36	2.3	36	89	2	123	34	16	18	30	1.93
1890634--1890668	18	1.9	18	88	0	52	40	0	0	60	0.97
1890604--1890733	32	3.9	33	75	9	95	44	1	0	53	1.15
1896339--1896378	16	2.4	17	83	4	55	55	0	0	45	0.99
1897987--1898069	29	3.0	29	67	29	72	51	0	0	48	1.00
1897991--1898046	23	2.5	21	80	11	67	51	0	0	48	1.00
1898005--1898052	21	2.3	21	85	3	71	52	0	0	47	1.00
1897991--1898056	21	2.9	24	76	17	68	51	0	0	48	1.00
1898044--1898074	13	2.3	14	94	5	55	41	0	0	58	0.98
1898845--1898873	14	2.0	15	93	6	51	0	6	3	89	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1900244--1900288	17	2.6	18	79	10	58	53	0	0	46	1.00
1900241--1900288	18	2.6	18	77	12	53	52	0	0	47	1.00
1900224--1900281	18	3.3	17	74	11	55	48	0	3	48	1.18
1913308--1913337	2	15.0	2	92	0	51	50	3	46	0	1.18
1917067--1917095	15	1.9	15	100	0	58	0	6	0	93	0.36
1922066--1922156	2	45.5	2	86	0	83	37	0	9	52	1.35
1930911--1930945	18	1.9	18	88	0	52	85	5	8	0	0.73
1932030--1932083	23	2.5	21	82	14	58	61	1	1	35	1.18
1933848--1933872	2	12.5	2	100	0	50	0	48	0	52	1.00
1933875--1933909	2	17.5	2	87	0	52	48	45	2	2	1.32

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   35   36   37   38   39   40   41   42   43   44   45