genome.fa.s24.2.7.7.80.10.50.1000.11.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: Scaffold24
Parameters: 2 7 7 80 10 50 1000
Length:  3006277

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  11  of  19  ( 2215 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)
1733147--1733179	14	2.3	15	90	10	52	60	0	0	39	0.97
1733133--1733198	20	3.1	21	77	18	75	54	0	1	43	1.09
1733110--1733175	25	2.6	25	74	9	62	53	0	1	45	1.09
1733855--1733944	35	2.5	35	82	8	92	40	0	2	57	1.11
1734217--1734254	13	2.7	15	80	19	55	28	0	0	71	0.87
1734221--1734288	22	3.0	22	79	12	68	29	0	0	70	0.87
1734225--1734282	11	5.3	11	78	15	57	29	0	0	70	0.87
1734464--1734502	16	2.5	15	84	8	51	35	0	7	56	1.28
1734649--1734703	20	2.9	20	81	7	62	47	5	0	47	1.25
1737680--1737744	31	2.1	31	91	0	103	55	16	9	18	1.67
1743530--1743561	2	16.0	2	100	0	64	50	0	0	50	1.00
1745355--1745394	20	2.0	21	90	5	64	57	0	0	42	0.98
1745566--1745623	5	12.2	5	75	14	52	39	0	1	58	1.08
1745614--1745662	20	2.7	18	75	12	55	46	0	0	53	1.00
1745633--1745698	27	2.3	29	76	23	70	51	0	0	48	1.00
1745867--1745911	20	2.3	18	82	14	54	42	0	4	53	1.21
1745873--1745910	19	1.9	21	89	10	62	42	0	2	55	1.14
1746268--1746345	40	1.9	41	82	12	99	44	1	5	48	1.32
1746703--1746752	23	2.2	23	82	7	57	48	0	0	52	1.00
1747640--1747677	15	2.6	15	87	4	51	31	0	0	68	0.90
1750062--1750090	2	14.5	2	100	0	58	48	0	0	51	1.00
1750276--1750335	19	3.2	19	72	9	59	65	1	0	33	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750489--1750548	23	2.8	20	72	16	57	53	1	6	38	1.37
1750946--1750992	23	2.0	23	91	0	76	34	0	2	63	1.06
1750966--1751057	14	6.4	14	68	25	59	41	0	1	57	1.06
1750958--1751065	43	2.5	45	80	11	127	39	0	0	59	1.04
1750977--1751046	32	2.2	32	78	12	74	42	0	1	55	1.08
1751911--1751984	36	2.1	36	84	5	96	62	0	1	36	1.04
1751934--1752012	25	3.3	24	76	15	83	62	0	0	37	0.96
1751976--1752036	17	3.7	16	72	18	54	62	0	0	37	0.96
1751921--1752029	36	3.2	35	79	14	104	62	0	0	36	1.02
1751970--1752074	45	2.2	45	83	10	120	60	2	0	36	1.11
1752218--1752261	21	2.0	23	86	13	65	61	0	2	36	1.09
1752398--1752458	28	2.1	29	84	6	79	50	0	1	47	1.10
1752750--1752830	24	3.3	24	78	16	94	61	2	1	34	1.17
1752733--1752830	50	2.0	50	82	11	121	60	5	2	32	1.30
1752801--1752852	13	3.7	13	77	22	52	57	0	0	42	0.98
1752769--1752927	11	14.1	11	65	23	57	60	0	0	38	1.06
1752789--1752930	27	5.1	27	72	16	101	60	0	0	38	1.02
1752796--1752933	35	4.0	35	70	22	114	60	0	0	39	0.97
1753223--1753293	34	2.1	33	92	2	115	53	4	4	38	1.40
1755267--1755316	2	25.0	2	100	0	100	50	0	0	50	1.00
1756000--1756063	19	3.2	20	73	6	58	40	0	0	59	0.97
1756049--1756110	32	2.0	31	87	3	88	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1756072--1756112	20	2.0	20	86	9	57	43	0	0	56	0.99
1758702--1758772	35	2.0	35	89	5	108	25	18	19	36	1.94
1759532--1759587	28	2.0	28	92	0	94	46	14	14	25	1.82
1760677--1760727	26	2.0	26	84	7	68	64	0	0	35	0.94
1761000--1761081	6	14.3	6	70	21	52	47	0	0	52	1.00
1760998--1761054	10	5.4	10	82	15	62	40	0	0	59	0.97
1761010--1761080	23	3.0	23	78	17	74	49	0	0	50	1.00
1762863--1762900	2	19.0	2	94	0	67	52	47	0	0	1.00
1768375--1768408	11	3.1	11	86	0	50	41	0	0	58	0.98
1768798--1768842	23	2.0	23	90	0	72	73	6	0	20	1.05
1780049--1780082	2	17.0	2	100	0	68	50	0	0	50	1.00
1782303--1782359	25	2.3	24	82	14	71	15	8	17	57	1.63
1782486--1782541	29	2.0	29	86	6	80	48	0	1	50	1.11
1783047--1783090	4	11.0	4	82	0	52	52	6	0	40	1.28
1783048--1783092	14	3.1	14	81	12	54	53	8	0	37	1.32
1783047--1783090	6	7.3	6	84	0	52	52	6	0	40	1.28
1783047--1783090	16	2.8	16	92	0	70	52	6	0	40	1.28
1785577--1785707	69	1.9	69	85	6	185	45	21	12	20	1.85
1790693--1790739	2	23.5	2	100	0	94	51	0	48	0	1.00
1793871--1793904	11	2.9	12	82	8	52	26	5	0	67	1.13
1794008--1794085	25	3.2	26	73	21	78	53	0	0	46	1.00
1794039--1794096	17	3.3	17	75	15	55	55	0	1	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1794049--1794100	13	3.8	13	74	18	52	57	0	1	40	1.10
1794062--1794132	27	2.6	28	80	6	83	63	2	1	32	1.18
1794092--1794203	11	9.7	11	72	17	61	64	2	1	31	1.18
1794857--1794967	20	5.8	19	72	20	81	46	1	0	51	1.11
1795235--1795347	39	3.0	37	76	12	106	57	0	0	42	0.98
1795219--1795297	24	3.7	20	73	22	63	63	0	0	36	0.95
1795255--1795340	19	4.5	19	73	7	68	56	0	0	43	0.99
1795253--1795347	37	2.6	38	77	15	101	55	0	0	44	0.99
1795253--1795353	19	5.3	19	66	23	61	57	0	0	42	0.98
1795653--1795700	16	3.4	13	85	11	51	37	0	0	62	0.95
1798357--1798412	26	2.2	26	90	0	94	44	5	8	41	1.58
1798477--1798504	2	14.0	2	100	0	56	50	0	0	50	1.00
1799603--1799645	16	2.8	16	76	16	54	41	0	0	58	0.98
1800771--1800808	20	1.9	20	100	0	76	47	0	0	52	1.00
1801777--1801819	22	2.0	23	86	9	63	48	0	2	48	1.14
1802921--1802969	19	2.6	19	78	12	64	51	2	0	46	1.12
1804229--1804290	15	4.2	14	78	10	52	35	1	1	61	1.16
1804229--1804275	15	3.2	14	82	8	58	38	0	0	61	0.96
1804971--1805483	254	2.0	254	94	0	900	33	20	17	29	1.95
1809472--1809511	17	2.2	20	86	13	59	70	0	0	30	0.88
1809443--1809510	25	2.8	25	72	20	63	67	2	0	29	1.05
1810356--1810433	34	2.4	32	81	10	95	33	3	3	58	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1810463--1810518	26	2.2	26	96	0	103	46	5	8	39	1.58
1810726--1810754	13	2.1	14	93	6	51	44	0	6	48	1.29
1812967--1813000	17	2.0	16	88	11	50	47	0	0	52	1.00
1812986--1813010	9	2.8	9	100	0	50	36	0	0	64	0.94
1815929--1815964	18	2.0	18	94	0	63	47	0	0	52	1.00
1820544--1820589	21	2.1	22	84	4	58	19	30	19	30	1.97
1823177--1823235	28	2.2	26	80	11	73	57	15	3	23	1.53
1823289--1823331	22	2.0	22	100	0	86	48	32	4	13	1.63
1823380--1823451	36	2.0	36	91	0	117	38	23	22	15	1.92
1823796--1823859	33	2.0	32	90	3	101	46	0	0	53	1.00
1824977--1825046	28	2.5	29	84	13	101	65	0	2	31	1.07
1824985--1825038	17	3.5	16	76	23	62	66	0	3	29	1.09
1825347--1825392	16	2.6	17	76	23	51	52	0	0	47	1.00
1826160--1826215	24	2.3	24	100	0	112	0	39	8	51	1.33
1828579--1828637	24	2.6	23	78	7	66	55	1	0	42	1.09
1829500--1829539	18	2.2	18	86	0	53	57	2	0	40	1.12
1829654--1829692	2	19.5	2	100	0	78	48	0	0	51	1.00
1830064--1830126	6	10.5	6	75	21	53	47	0	0	52	1.00
1830064--1830096	7	5.0	7	89	10	52	45	0	0	54	0.99
1830064--1830127	13	5.2	13	71	21	57	46	0	0	53	1.00
1830087--1830130	23	2.0	23	90	4	72	50	0	0	50	1.00
1830584--1830643	31	1.9	32	86	3	86	45	1	3	50	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1830817--1830847	16	2.0	16	93	6	55	22	0	0	77	0.77
1831319--1831359	19	2.1	20	86	4	57	60	4	0	34	1.18
1832795--1832826	2	16.0	2	100	0	64	50	0	0	50	1.00
1834226--1834269	2	22.0	2	90	0	70	47	0	2	50	1.13
1834795--1834824	15	2.0	15	93	0	51	56	3	0	40	1.16
1835848--1835888	15	2.7	15	88	0	64	46	4	0	48	1.23
1836391--1836426	15	2.4	15	95	0	63	72	2	0	25	0.98
1837519--1837555	15	2.6	14	87	8	56	29	0	0	70	0.88
1837532--1837569	18	2.0	19	90	10	60	31	0	0	68	0.90
1837999--1838136	71	1.9	71	80	0	159	34	20	23	21	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19