genome.fa.s63.2.7.7.80.10.50.1000.12.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: Scaffold63
Parameters: 2 7 7 80 10 50 1000
Length:  2211945

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  12  of  16  ( 1834 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)
1694808--1694843	18	2.0	18	94	0	63	75	0	0	25	0.81
1694896--1694933	18	2.1	18	85	9	51	55	2	0	42	1.14
1694897--1694957	26	2.5	24	78	7	59	52	3	0	44	1.17
1694912--1694970	24	2.4	25	77	11	59	57	3	0	38	1.15
1700107--1700150	2	22.0	2	100	0	88	0	50	0	50	1.00
1702786--1702958	86	2.0	86	82	6	208	17	12	19	50	1.78
1709333--1709380	20	2.3	20	82	3	60	43	10	8	37	1.69
1709323--1709379	21	2.8	21	78	2	62	47	10	7	35	1.65
1709436--1709483	20	2.4	20	89	0	78	47	6	8	37	1.59
1710008--1710034	8	3.4	8	100	0	54	62	11	0	25	1.28
1711087--1711170	20	4.2	21	68	20	56	44	3	0	52	1.18
1711149--1711215	34	2.0	34	96	0	125	52	0	1	46	1.09
1711259--1711298	19	2.1	19	86	9	55	72	2	0	25	0.97
1711566--1711596	13	2.3	14	94	5	55	70	0	3	25	1.02
1711810--1711854	18	2.7	16	80	12	54	31	2	17	48	1.59
1713190--1713293	47	2.2	46	91	5	165	49	0	2	47	1.23
1713445--1713529	29	2.9	29	92	0	152	51	18	1	28	1.54
1722176--1722203	3	9.3	3	100	0	56	67	0	0	32	0.91
1722726--1722793	31	2.0	32	83	13	84	30	0	10	58	1.31
1722760--1722813	21	2.4	22	84	9	65	29	0	9	61	1.27
1722778--1722821	23	1.9	23	81	9	54	31	0	6	61	1.22
1723748--1723813	17	3.8	17	76	7	51	83	3	7	6	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1725327--1725351	7	3.6	7	100	0	50	68	0	0	32	0.90
1726600--1726641	16	2.6	16	84	0	57	38	0	11	50	1.40
1732584--1732620	3	12.3	3	88	0	56	0	5	29	64	1.15
1735420--1735595	82	2.1	82	92	2	291	43	5	5	46	1.48
1743001--1743408	204	2.0	204	100	0	816	31	11	16	40	1.83
1747864--1747903	21	1.9	21	85	10	55	62	0	0	37	0.95
1752399--1752436	3	12.7	3	94	0	67	68	2	0	28	1.03
1752526--1752581	27	2.1	27	96	0	103	42	0	23	33	1.54
1755330--1755395	20	3.4	20	75	8	73	30	1	15	53	1.51
1755322--1755400	38	2.1	38	97	0	149	32	3	13	49	1.61
1755322--1755379	18	3.1	18	71	9	62	34	3	13	48	1.60
1757840--1758050	112	1.9	111	84	2	280	23	16	18	41	1.90
1766732--1766772	2	20.5	2	94	0	73	51	0	0	48	1.00
1767513--1767569	10	6.1	10	82	15	61	61	0	0	38	0.96
1767513--1767563	19	2.6	19	85	14	61	62	0	0	37	0.95
1767515--1767568	21	2.7	20	75	16	58	62	0	0	37	0.95
1767535--1767593	26	2.2	27	87	3	84	57	3	0	38	1.15
1767513--1767600	26	3.2	27	76	14	83	59	2	0	38	1.10
1767613--1767642	16	1.9	15	93	6	51	86	0	0	13	0.57
1767851--1767933	25	3.4	24	71	14	80	42	1	0	56	1.07
1767815--1767954	13	10.6	14	68	24	74	40	0	0	58	1.03
1767831--1767972	49	2.9	49	72	18	125	40	0	0	58	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1768826--1768867	19	2.3	18	91	4	66	35	2	0	61	1.09
1769148--1769188	18	2.3	18	88	12	59	51	2	2	43	1.28
1769201--1769254	24	2.2	24	81	9	65	46	1	0	51	1.11
1769270--1769349	17	3.8	21	75	23	71	63	5	0	31	1.15
1769290--1769338	25	2.0	25	95	0	89	63	6	0	30	1.19
1769296--1769349	25	2.2	25	86	0	72	64	7	0	27	1.20
1769814--1769881	35	1.9	35	82	5	84	44	0	0	55	0.99
1770861--1770906	20	2.3	20	81	7	58	15	13	0	71	1.14
1771555--1771598	17	2.7	16	89	3	61	34	6	11	47	1.66
1771560--1771598	17	2.4	17	91	4	62	33	7	12	46	1.71
1780749--1780849	28	3.5	29	70	22	70	45	0	0	54	0.99
1780774--1780823	14	3.6	14	79	15	59	40	0	0	60	0.97
1780772--1780840	28	2.5	28	83	9	88	44	0	0	55	0.99
1787370--1787440	26	2.5	29	76	21	78	52	0	0	47	1.00
1789965--1790005	16	2.5	17	88	4	57	0	17	2	80	0.82
1789956--1790007	12	4.4	11	83	11	59	0	17	1	80	0.80
1790561--1790591	12	2.5	13	89	10	55	58	0	0	41	0.98
1791651--1791694	23	1.9	23	86	9	63	43	0	0	56	0.99
1793284--1793352	30	2.4	29	81	11	79	53	0	0	46	1.00
1793861--1793940	28	2.8	29	81	11	119	47	2	1	48	1.23
1793923--1793954	2	16.0	2	100	0	64	50	0	0	50	1.00
1795177--1795222	23	2.0	23	86	4	65	30	13	6	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1796085--1796151	32	2.1	32	85	0	89	56	0	2	40	1.14
1796248--1796294	25	1.9	24	87	12	69	42	2	0	55	1.12
1798089--1798167	40	2.0	40	85	9	108	51	0	0	48	1.00
1798119--1798167	20	2.4	21	76	10	57	59	0	0	40	0.98
1800925--1800982	27	2.2	26	84	9	73	56	1	0	41	1.09
1801556--1801585	15	1.9	16	93	6	53	56	0	0	43	0.99
1802163--1802192	10	3.1	10	90	9	53	10	0	0	90	0.47
1802163--1802192	9	3.2	9	95	4	51	10	0	0	90	0.47
1803025--1803049	2	12.5	2	100	0	50	52	0	0	48	1.00
1811242--1811272	2	15.5	2	93	0	53	51	0	3	45	1.17
1811436--1811461	3	8.7	3	100	0	52	65	0	34	0	0.93
1811838--1811879	3	14.3	3	85	5	59	66	2	0	30	1.04
1812101--1812140	20	2.0	20	85	9	55	60	0	0	40	0.97
1812134--1812181	17	2.8	18	82	14	57	54	0	0	45	0.99
1814178--1814228	25	2.0	25	81	7	59	35	5	3	54	1.43
1814358--1814424	18	3.6	18	71	16	55	58	0	2	38	1.14
1815680--1815711	2	16.0	2	100	0	64	50	0	0	50	1.00
1816483--1816583	17	6.5	17	71	20	69	39	11	0	48	1.40
1816483--1816572	16	5.9	16	71	21	68	37	11	0	51	1.38
1816469--1816573	43	2.4	42	89	6	156	37	12	0	49	1.47
1819338--1819402	16	4.1	15	74	20	53	58	0	1	40	1.07
1819766--1819836	17	4.5	15	73	16	63	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)
1820086--1820181	33	2.9	33	80	9	115	52	3	4	40	1.37
1820384--1820414	16	1.9	16	93	0	53	48	6	3	41	1.45
1828377--1828411	2	17.5	2	100	0	70	51	0	0	48	1.00
1829057--1829137	23	3.3	23	72	21	83	45	6	0	48	1.27
1829036--1829145	51	2.2	50	93	3	184	44	7	0	47	1.37
1829777--1829824	19	2.7	18	73	20	55	58	0	0	41	0.98
1830001--1830040	20	1.9	20	85	10	53	45	5	7	42	1.54
1830148--1830185	3	13.0	3	88	5	60	65	2	0	31	1.06
1830379--1830412	2	17.0	2	100	0	68	50	0	0	50	1.00
1830733--1830780	20	2.4	20	82	0	60	43	0	0	56	0.99
1833826--1833894	18	3.6	18	75	12	66	43	0	1	55	1.08
1833804--1833915	39	3.2	36	73	17	110	39	0	1	58	1.08
1833821--1833934	32	3.5	34	74	21	102	40	0	1	57	1.09
1833849--1833934	40	2.2	40	81	8	95	41	0	0	58	0.98
1833849--1833913	19	3.3	19	78	16	62	44	0	0	55	0.99
1833801--1833934	16	8.6	16	68	18	79	39	0	1	58	1.07
1833859--1833925	19	3.7	18	74	20	59	41	0	0	58	0.98
1834458--1834500	20	2.2	20	83	8	52	67	0	0	32	0.91
1837604--1837650	18	2.3	20	82	13	53	48	4	0	46	1.21
1837614--1837655	22	2.0	21	86	9	59	45	4	0	50	1.23
1840883--1840928	24	2.0	23	82	4	56	32	0	6	60	1.22
1840974--1841053	22	3.4	22	68	19	63	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)
1841592--1841643	16	3.3	15	77	17	52	50	1	0	48	1.12
1841591--1841657	32	2.1	32	83	8	82	52	2	0	44	1.16
1843763--1843840	37	2.1	37	97	0	147	7	11	19	61	1.53
1846249--1846294	23	2.0	22	83	12	56	39	6	4	50	1.48
1849091--1849148	25	2.3	24	79	8	62	37	1	1	58	1.18
1849394--1849452	19	3.1	18	76	13	57	61	0	1	37	1.07
1849409--1849484	32	2.3	34	86	8	104	55	0	1	43	1.08
1849419--1849512	27	3.6	26	72	13	70	56	1	1	41	1.13
1850591--1850634	19	2.3	20	84	11	65	43	0	0	56	0.99
1850588--1850628	11	4.0	11	75	18	52	39	0	0	60	0.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16