genome.fa.s221.2.7.7.80.10.50.1000.14.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: Scaffold221
Parameters: 2 7 7 80 10 50 1000
Length:  2539808

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

This is table  14  of  19  ( 2279 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)
1677775--1677821	15	3.1	15	80	14	53	53	0	2	44	1.12
1684222--1684274	18	3.3	17	77	17	60	54	0	1	43	1.11
1685098--1685131	16	2.1	16	88	0	50	52	2	0	44	1.16
1686865--1686912	21	2.4	21	79	6	55	54	2	0	43	1.12
1687150--1687260	28	3.9	28	72	18	86	36	0	1	61	1.07
1687150--1687196	17	2.7	18	87	9	71	29	0	4	65	1.11
1687184--1687252	33	2.1	32	84	12	88	42	0	0	57	0.98
1688402--1688445	20	2.3	19	80	4	52	50	0	0	50	1.00
1689487--1689560	38	2.0	38	86	7	107	48	0	0	51	1.00
1691363--1691414	23	2.4	22	84	9	70	30	15	15	38	1.88
1692866--1692890	2	12.5	2	100	0	50	52	0	0	48	1.00
1696408--1696487	32	2.4	33	85	8	108	56	2	1	40	1.21
1696418--1696482	20	3.6	19	71	26	61	53	3	1	41	1.25
1699791--1699855	31	2.1	31	82	5	78	43	0	3	53	1.16
1700017--1700043	2	13.5	2	100	0	54	51	0	0	48	1.00
1701161--1701225	20	3.6	19	73	26	70	53	3	1	41	1.25
1701151--1701231	32	2.5	32	89	4	117	54	2	1	41	1.21
1701218--1701262	18	2.5	17	82	10	54	55	0	2	42	1.12
1704503--1704567	31	2.1	31	82	5	78	43	0	3	53	1.16
1704727--1704758	2	16.0	2	100	0	64	50	0	0	50	1.00
1705876--1705940	20	3.6	19	73	26	70	53	3	1	41	1.25
1705866--1705946	32	2.5	32	89	4	117	54	2	1	41	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705933--1705977	18	2.5	17	82	10	54	55	0	2	42	1.12
1709219--1709283	31	2.1	31	85	5	87	44	0	1	53	1.09
1709233--1709283	12	3.1	18	66	33	51	43	0	1	54	1.11
1711510--1711542	15	2.3	15	89	5	50	66	6	3	24	1.28
1711379--1711890	258	2.0	257	92	2	861	48	9	8	33	1.67
1712077--1712110	18	1.9	17	94	5	59	58	0	0	41	0.98
1712077--1712110	17	1.9	18	88	5	52	58	0	0	41	0.98
1712400--1712455	28	2.0	27	82	3	67	66	1	0	32	1.03
1712448--1712511	32	2.0	33	87	3	94	54	1	3	40	1.25
1712603--1712641	20	2.0	21	90	10	64	28	0	0	71	0.86
1712863--1712925	29	2.1	30	82	5	74	47	1	1	49	1.20
1712937--1712978	17	2.5	17	80	7	50	71	4	2	21	1.16
1714921--1714970	23	2.3	23	82	6	59	54	6	2	38	1.37
1715108--1715142	2	17.5	2	87	0	52	51	5	0	42	1.25
1715108--1715142	16	2.2	16	100	0	70	51	5	0	42	1.25
1715489--1715529	14	2.8	14	88	7	55	2	19	0	78	0.87
1716765--1717201	32	13.8	32	92	2	706	16	18	34	30	1.93
1717184--1717702	27	19.0	27	91	1	822	28	14	34	22	1.93
1717184--1717702	273	1.9	272	95	2	934	28	14	34	22	1.93
1723582--1723606	12	2.1	12	100	0	50	52	8	16	24	1.70
1724930--1724980	22	2.3	23	82	3	59	54	5	1	37	1.36
1725117--1725147	14	2.2	14	100	0	62	51	6	0	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1725519--1725569	11	4.5	11	79	11	59	1	19	0	78	0.85
1729080--1729121	22	1.9	22	90	0	66	42	19	2	35	1.64
1729157--1729181	12	2.1	12	100	0	50	40	36	0	24	1.55
1729979--1730038	25	2.3	26	80	13	61	45	0	1	53	1.10
1729991--1730060	29	2.5	29	81	4	81	50	0	0	50	1.00
1730347--1730417	27	2.6	27	88	6	99	22	7	23	46	1.76
1730494--1730539	20	2.3	20	84	0	56	13	47	4	34	1.62
1732991--1733036	21	2.1	22	84	4	58	30	19	30	19	1.97
1734920--1734990	27	2.6	27	84	6	90	23	7	22	46	1.76
1735636--1735669	17	2.1	17	88	5	52	41	0	0	58	0.98
1736126--1736183	21	2.9	21	80	12	68	37	1	0	60	1.07
1736126--1736183	19	2.9	21	82	12	61	37	1	0	60	1.07
1736208--1736251	12	3.8	12	81	3	54	63	0	0	36	0.95
1736467--1736526	9	6.6	10	74	22	53	41	1	0	56	1.09
1736467--1736545	15	5.4	14	68	18	54	40	1	0	58	1.06
1736577--1736628	19	2.8	18	74	11	52	57	0	0	42	0.98
1736730--1736791	24	2.6	24	78	12	65	43	1	0	54	1.09
1736774--1736803	14	2.1	14	93	0	51	36	3	0	60	1.14
1736730--1736801	5	15.2	5	69	16	55	43	1	0	55	1.08
1737125--1737182	2	29.5	2	83	10	57	50	1	1	46	1.22
1739146--1739186	14	2.7	15	78	21	50	48	0	0	51	1.00
1739228--1739252	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1740236--1740260	13	1.9	13	100	0	50	40	0	0	60	0.97
1741565--1741603	2	19.5	2	94	0	69	53	0	0	46	1.00
1742311--1742362	17	3.2	17	82	15	58	36	0	0	63	0.95
1742950--1743002	2	26.5	2	100	0	106	49	0	0	50	1.00
1743498--1743530	2	17.0	2	93	6	59	51	0	0	48	1.00
1744351--1744432	33	2.8	29	80	15	82	54	0	1	43	1.07
1744383--1744432	7	7.4	7	75	8	50	52	0	2	46	1.12
1744422--1744768	173	2.0	173	95	0	631	46	6	4	42	1.50
1749015--1749064	21	2.4	21	83	12	59	46	2	6	46	1.39
1749454--1749494	11	3.6	12	83	9	50	78	0	12	9	0.98
1749451--1749494	22	2.0	23	90	4	72	77	0	11	11	1.00
1750380--1750426	2	23.5	2	100	0	94	48	0	0	51	1.00
1750525--1750553	2	14.5	2	100	0	58	51	48	0	0	1.00
1750553--1750590	2	19.0	2	94	0	67	52	0	0	47	1.00
1751417--1751452	19	1.9	19	88	5	56	61	8	0	30	1.26
1751479--1751602	38	3.4	38	77	12	118	51	1	3	43	1.27
1751543--1751599	15	3.3	18	74	23	59	49	0	0	50	1.00
1754372--1754414	23	2.0	21	86	9	59	44	2	0	53	1.13
1754433--1754500	29	2.2	29	80	12	75	35	4	5	54	1.45
1754935--1754994	27	2.2	27	78	0	66	18	56	8	16	1.64
1755039--1755075	18	2.1	18	94	0	65	27	43	8	21	1.80
1755057--1755130	31	2.4	30	95	2	130	27	51	5	16	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1755019--1755130	15	7.2	15	74	7	89	23	51	8	16	1.72
1755064--1755143	15	5.5	15	67	16	60	28	53	5	12	1.59
1758416--1758456	16	2.8	14	82	13	55	65	0	0	34	0.93
1761052--1761111	21	2.9	21	80	20	65	55	0	0	45	0.99
1761066--1761110	22	2.0	22	87	12	65	48	0	0	51	1.00
1762234--1762314	18	4.6	18	73	21	55	39	0	2	58	1.12
1762284--1762335	11	4.7	11	81	6	61	32	1	0	65	1.04
1762546--1762595	22	2.3	22	75	6	57	52	2	0	46	1.12
1763929--1763957	2	14.5	2	100	0	58	51	0	0	48	1.00
1764969--1765007	19	2.1	19	90	4	62	61	0	0	38	0.96
1764960--1765009	17	2.9	17	80	13	59	56	0	0	44	0.99
1764969--1765023	19	2.9	18	76	10	56	56	0	0	43	0.99
1765306--1765350	17	2.7	17	83	12	58	44	0	0	55	0.99
1765347--1765397	20	2.6	21	87	9	72	56	0	0	43	0.99
1767397--1767433	3	12.3	3	100	0	74	32	0	0	67	0.91
1768159--1768188	3	10.0	3	100	0	60	33	0	0	66	0.92
1768342--1768417	37	2.0	38	94	2	136	32	22	17	27	1.96
1769051--1769084	2	17.0	2	100	0	68	50	0	50	0	1.00
1771301--1771346	21	2.2	21	100	0	92	67	0	0	32	0.91
1771838--1771893	27	2.1	27	89	0	85	66	0	0	33	0.92
1771826--1771893	5	13.2	5	75	16	50	64	0	1	33	1.02
1771954--1771998	23	2.0	22	87	8	65	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)
1772095--1772148	17	3.2	17	73	26	53	50	1	3	44	1.30
1772076--1772155	32	2.4	34	81	10	101	52	2	3	41	1.33
1773663--1773696	7	5.0	7	85	7	52	67	0	0	32	0.91
1773654--1773701	14	3.5	15	81	13	59	62	0	0	37	0.95
1774796--1774846	19	2.5	20	81	9	59	47	3	0	49	1.20
1776882--1776915	11	3.1	11	86	0	50	55	2	0	41	1.15
1777084--1777108	6	4.2	6	100	0	50	32	0	0	68	0.90
1779254--1779297	3	14.7	3	100	0	88	31	0	0	68	0.90
1780446--1780503	15	3.7	15	77	20	64	44	0	0	55	0.99
1780448--1780534	33	2.6	32	82	10	95	41	1	0	57	1.06

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