genome.fa.s223.2.7.7.80.10.50.1000.10.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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  10  of  26  ( 3021 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)
1726995--1727191	86	2.3	85	80	9	211	48	4	3	43	1.40
1727140--1727212	12	6.0	12	74	16	53	54	0	2	42	1.14
1727266--1727327	24	2.7	23	80	9	72	56	0	0	43	0.99
1727056--1727307	99	2.6	98	77	9	251	51	2	3	42	1.32
1727287--1727320	17	2.0	17	94	0	59	50	0	0	50	1.00
1727739--1727774	13	2.7	13	86	4	54	47	0	0	52	1.00
1728436--1728485	26	2.0	24	84	7	64	38	0	2	60	1.09
1729572--1729609	17	2.2	17	86	9	51	52	0	2	44	1.14
1729600--1729683	19	4.1	20	72	15	73	69	2	1	27	1.09
1729603--1729677	23	3.1	23	76	19	82	68	2	1	28	1.12
1731836--1731884	22	2.1	25	88	11	77	71	6	0	22	1.08
1731836--1731888	26	2.0	25	82	13	63	71	5	0	22	1.06
1731985--1732031	18	2.8	17	76	23	55	48	0	0	51	1.00
1733335--1733426	47	2.0	44	85	10	123	48	3	0	47	1.17
1733868--1733950	40	2.1	40	95	0	148	28	10	39	20	1.86
1734020--1734069	11	4.5	11	78	14	57	64	0	2	34	1.05
1735907--1735941	18	1.9	18	94	0	61	31	5	2	60	1.35
1739572--1739611	2	20.0	2	100	0	80	50	0	0	50	1.00
1739945--1739991	15	3.1	16	82	14	55	59	0	0	40	0.97
1743482--1743511	14	2.1	14	100	0	60	10	0	63	26	1.26
1743525--1743599	27	2.9	26	82	5	98	34	2	9	53	1.47
1744694--1744740	17	2.8	17	81	9	53	59	2	2	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744696--1744760	20	3.2	20	72	10	60	60	1	1	36	1.16
1744717--1744764	23	2.1	23	84	7	62	62	0	2	35	1.07
1745266--1745310	24	1.9	23	86	4	63	37	2	0	60	1.09
1748857--1748906	25	2.0	25	100	0	100	36	20	20	24	1.95
1751449--1751536	47	2.0	45	80	17	103	50	0	0	50	1.00
1753101--1753139	2	19.5	2	89	0	60	46	2	0	51	1.14
1758925--1758957	2	16.5	2	100	0	66	0	48	0	51	1.00
1765870--1766040	77	2.2	77	83	2	200	38	8	14	38	1.77
1766669--1766872	102	2.0	101	88	2	302	23	20	21	34	1.96
1768997--1769045	2	24.5	2	100	0	98	51	0	48	0	1.00
1771274--1771344	25	2.6	28	77	18	78	47	0	2	49	1.16
1771274--1771341	28	2.5	28	76	11	77	48	0	2	48	1.16
1771752--1771802	24	2.1	24	85	3	66	45	1	0	52	1.12
1771738--1771809	35	2.1	35	82	7	85	47	1	0	51	1.09
1772972--1773057	24	3.5	25	69	16	63	26	3	3	66	1.24
1773250--1773283	17	1.9	18	88	5	52	23	8	8	58	1.56
1773890--1773936	16	2.9	16	75	15	51	61	0	0	38	0.96
1773950--1774004	27	2.1	28	86	10	80	47	0	0	52	1.00
1773942--1773992	22	2.4	21	81	15	61	47	0	0	52	1.00
1773946--1774004	26	2.3	27	82	11	79	49	0	0	50	1.00
1775499--1775532	13	2.6	13	90	0	50	50	2	2	44	1.32
1781153--1781178	8	3.2	8	100	0	52	15	0	0	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781472--1781537	27	2.4	28	78	14	75	43	0	4	51	1.22
1781579--1781617	16	2.4	16	86	0	51	51	12	5	30	1.62
1781634--1781680	16	2.9	16	78	6	51	53	14	6	25	1.65
1782056--1782099	21	2.0	22	86	4	63	50	4	2	43	1.35
1782085--1782121	16	2.4	16	86	8	51	67	2	0	29	1.04
1786127--1786245	62	1.9	62	84	0	157	43	1	4	50	1.31
1790569--1790616	16	3.0	16	100	0	96	31	18	0	50	1.48
1791494--1791523	14	2.1	14	93	0	51	66	3	13	16	1.37
1792043--1792084	22	1.9	22	100	0	84	40	23	7	28	1.81
1792726--1792760	18	1.9	18	94	0	61	20	2	0	77	0.90
1795252--1795303	26	2.0	26	92	0	86	46	7	7	38	1.61
1798177--1798275	47	2.1	47	96	0	180	48	5	6	40	1.50
1806197--1806228	16	1.9	17	93	6	57	37	6	25	31	1.81
1806317--1806421	13	8.6	12	71	21	60	64	3	0	31	1.11
1807617--1807667	23	2.1	24	78	14	59	52	3	0	43	1.19
1816107--1816135	8	3.8	8	90	9	51	0	10	0	89	0.48
1822915--1822939	2	12.5	2	100	0	50	48	0	0	52	1.00
1823148--1823222	25	3.0	25	75	13	73	45	1	0	53	1.08
1823710--1823738	2	15.0	2	92	7	51	51	0	0	48	1.00
1824369--1824402	17	1.9	18	88	5	52	41	5	0	52	1.25
1825152--1825201	24	2.0	25	88	11	77	54	0	0	46	1.00
1825749--1825787	17	2.3	17	86	8	53	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1827378--1827431	28	2.0	28	82	13	69	42	0	1	55	1.10
1827418--1827446	15	2.0	15	93	6	51	44	0	0	55	0.99
1828011--1828056	22	2.2	21	77	11	51	52	0	2	45	1.13
1828904--1828991	18	4.7	20	68	14	55	36	0	4	59	1.18
1830118--1830179	17	3.6	17	75	14	56	35	0	1	62	1.05
1830137--1830211	18	4.3	16	68	17	51	40	0	0	60	0.97
1830136--1830217	43	1.9	43	85	9	114	37	0	0	62	0.96
1830189--1830235	24	1.9	25	86	4	69	34	0	0	65	0.93
1830277--1830312	2	18.5	2	88	5	56	52	0	0	47	1.00
1832536--1832560	3	8.3	3	100	0	50	32	0	68	0	0.90
1839715--1839773	25	2.3	27	85	11	79	49	1	0	49	1.11
1839715--1839791	25	3.0	25	81	7	75	49	1	1	48	1.17
1839916--1839958	13	3.5	13	75	12	54	62	0	9	27	1.25
1839909--1839961	24	2.2	24	89	0	79	66	0	7	26	1.18
1839916--1839969	24	2.2	24	96	0	99	61	0	7	31	1.24
1841202--1841341	5	29.2	5	70	16	100	57	0	0	42	1.04
1841235--1841294	23	2.6	22	89	7	84	53	0	0	46	1.00
1841186--1841342	60	2.6	58	79	14	144	56	0	0	43	1.04
1847743--1847782	2	20.0	2	100	0	80	50	0	50	0	1.00
1848646--1848689	22	2.0	22	86	0	61	34	0	2	63	1.07
1848744--1848784	12	3.4	12	79	0	55	56	0	0	43	0.99
1853145--1853526	193	2.0	193	96	0	710	35	19	12	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1855946--1855979	15	2.2	16	89	5	52	44	0	2	52	1.16
1856004--1856056	11	5.1	11	74	21	51	60	0	0	39	0.97
1856003--1856054	17	3.3	17	76	12	58	59	0	0	40	0.97
1856003--1856035	6	5.7	6	85	7	50	54	0	0	45	0.99
1857810--1857848	20	2.0	20	89	0	60	66	0	0	33	0.92
1859458--1859638	93	1.9	91	89	8	276	37	15	21	25	1.93
1860755--1860801	15	3.1	15	84	6	51	42	2	0	55	1.12
1861449--1861476	13	2.2	13	100	0	56	50	0	0	50	1.00
1862606--1862698	30	3.1	29	85	8	125	41	2	0	55	1.11
1862609--1862732	59	2.1	60	83	4	153	40	3	0	56	1.15
1867908--1867952	19	2.4	20	79	20	53	51	4	4	40	1.42
1869010--1869040	3	10.3	3	100	0	62	32	0	0	67	0.91
1869275--1869313	21	1.9	21	89	5	62	41	7	2	48	1.45
1869420--1869513	30	3.2	29	82	10	111	55	2	4	38	1.31
1870050--1870094	18	2.3	20	88	7	67	0	24	0	75	0.80
1870050--1870095	19	2.4	20	82	10	60	0	23	0	76	0.79
1870455--1870485	16	1.9	16	93	0	53	58	6	0	35	1.24
1876465--1876500	19	1.9	18	88	5	54	47	0	0	52	1.00
1877428--1877509	32	2.7	32	85	9	100	51	0	1	47	1.08
1877470--1877527	27	2.1	28	81	9	66	53	1	0	44	1.10
1877548--1877611	19	3.2	20	77	18	64	67	3	0	29	1.06
1880498--1880557	24	2.6	23	81	2	66	56	1	3	38	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882284--1882329	14	3.5	13	80	13	51	58	0	0	41	0.98
1882413--1882440	2	14.0	2	100	0	56	50	0	0	50	1.00
1883245--1883279	18	1.9	18	88	11	54	62	0	2	34	1.10
1883335--1883379	18	2.4	19	78	14	58	40	0	0	60	0.97
1887282--1887330	25	2.1	25	78	14	61	44	0	0	55	0.99
1890909--1890979	33	2.2	32	82	2	88	60	1	2	35	1.20
1893755--1893794	2	20.0	2	100	0	80	50	0	50	0	1.00
1894434--1894486	16	3.2	18	73	26	62	45	0	1	52	1.11
1895788--1895838	14	3.4	14	75	19	57	49	0	0	50	1.00
1895794--1895838	16	2.8	16	77	12	56	48	0	0	51	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