genome.fa.s79.2.7.7.80.10.50.1000.12.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: Scaffold79
Parameters: 2 7 7 80 10 50 1000
Length:  4189514

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  12  of  26  ( 3105 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)
1633822--1633879	18	3.3	17	72	15	55	50	0	1	48	1.11
1634115--1634160	12	4.0	11	81	10	56	71	2	0	26	0.97
1635416--1635471	27	2.0	29	83	10	73	35	1	0	62	1.06
1635393--1635471	29	2.7	29	81	16	83	37	1	0	60	1.05
1640398--1640440	23	2.0	21	86	9	59	27	2	0	69	1.00
1645740--1645784	23	1.9	23	86	13	65	31	2	0	66	1.04
1646939--1647026	28	3.2	28	70	13	83	42	1	1	55	1.14
1646951--1647032	27	3.0	27	75	8	78	43	1	1	53	1.16
1647325--1647356	2	16.0	2	100	0	64	50	0	0	50	1.00
1647375--1647432	16	3.6	16	84	11	73	39	0	1	58	1.08
1647371--1647456	32	2.7	32	78	12	86	37	0	5	56	1.23
1647459--1647507	14	3.3	15	71	23	50	20	0	18	61	1.35
1647388--1647514	16	8.1	16	75	8	91	28	0	11	59	1.32
1647658--1647692	16	2.1	18	89	10	56	54	5	0	40	1.24
1648066--1648114	18	2.7	18	79	14	57	51	2	0	46	1.12
1648046--1648161	32	3.7	30	73	14	85	55	3	0	41	1.17
1648910--1648952	23	2.0	21	86	9	59	48	6	0	44	1.29
1655781--1655834	2	27.0	2	100	0	108	50	0	0	50	1.00
1656001--1656101	45	2.2	45	81	6	107	50	1	0	47	1.12
1656522--1656550	2	14.5	2	100	0	58	0	0	48	51	1.00
1656554--1656611	6	9.7	6	98	0	107	34	0	13	51	1.42
1661653--1661698	21	2.2	21	84	7	58	28	15	39	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662097--1662145	22	2.3	22	79	13	57	63	0	0	36	0.95
1662271--1662319	22	2.1	24	81	7	57	34	2	0	63	1.06
1662685--1662737	18	2.9	18	81	13	65	45	0	0	54	0.99
1663454--1663561	38	2.8	37	67	28	91	50	12	1	36	1.50
1667143--1667194	23	2.3	23	82	0	68	50	3	7	38	1.50
1668366--1668404	19	2.1	19	85	0	51	33	5	0	61	1.18
1671450--1671474	4	6.2	4	100	0	50	52	0	0	48	1.00
1671881--1671930	21	2.3	22	75	3	57	40	0	0	60	0.97
1671894--1671955	32	1.9	32	83	6	81	40	1	1	56	1.19
1671912--1671976	28	2.4	26	80	14	69	35	1	1	61	1.15
1671939--1671986	12	4.3	12	82	12	59	31	2	0	66	1.03
1672834--1672867	5	6.8	5	90	10	52	41	0	2	55	1.15
1678006--1678074	16	4.1	17	73	17	56	56	1	0	42	1.08
1678621--1678686	21	3.1	21	71	18	57	60	1	0	37	1.06
1678825--1678862	15	2.4	17	82	13	53	63	0	0	36	0.95
1679432--1679480	19	2.5	20	71	15	50	32	6	2	59	1.34
1681432--1681488	15	3.6	16	79	9	55	57	0	0	42	0.98
1682151--1682195	23	2.0	23	82	8	56	53	0	0	46	1.00
1682722--1682752	3	10.3	3	92	0	53	70	0	0	29	0.87
1683186--1683214	14	2.1	14	100	0	58	34	37	0	27	1.57
1683388--1683422	17	2.0	18	88	5	54	57	0	0	42	0.99
1684265--1684295	3	10.3	3	92	0	53	64	0	35	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688676--1688743	22	3.0	22	77	12	68	54	2	1	41	1.24
1688778--1688818	20	2.0	20	90	9	66	51	0	0	48	1.00
1689446--1689528	26	3.1	26	75	16	80	40	2	2	54	1.27
1689446--1689528	27	3.1	27	75	17	84	40	2	2	54	1.27
1689487--1689533	22	2.2	21	85	11	60	42	0	0	57	0.98
1689693--1689734	22	1.9	22	85	9	59	52	0	0	47	1.00
1690127--1690185	11	5.5	11	70	11	50	55	3	0	40	1.16
1690671--1690774	24	4.4	23	73	13	70	59	0	0	39	1.04
1690667--1690774	13	7.7	13	66	25	51	59	0	0	39	1.04
1690667--1690820	63	2.5	62	76	15	149	57	0	1	40	1.10
1691122--1691169	20	2.5	19	77	9	53	50	0	2	47	1.12
1691117--1691151	17	2.1	17	89	5	54	42	0	0	57	0.99
1692235--1692271	14	2.6	14	87	12	58	32	2	0	64	1.07
1692825--1692856	3	10.7	3	100	0	64	31	0	0	68	0.90
1695500--1695536	16	2.2	17	90	4	58	51	0	2	45	1.15
1697285--1697315	2	16.0	2	93	6	55	48	0	0	51	1.00
1701497--1701524	2	14.0	2	100	0	56	50	0	0	50	1.00
1702572--1702634	24	2.6	23	78	11	72	34	0	1	63	1.04
1702592--1702628	18	2.1	18	89	0	56	32	0	0	67	0.91
1702582--1702639	25	2.4	25	82	8	66	32	0	3	63	1.11
1708507--1708710	76	2.6	78	80	5	218	28	16	29	25	1.96
1708662--1708733	28	2.6	28	88	0	99	23	19	34	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708722--1708891	52	3.3	50	79	11	182	32	12	24	29	1.93
1708865--1708946	27	3.0	28	82	10	98	26	21	29	21	1.99
1711363--1711388	13	2.0	13	100	0	52	38	15	15	30	1.88
1711342--1711408	33	2.0	33	88	0	98	43	16	14	25	1.86
1711428--1711495	19	3.9	18	76	23	83	38	14	11	35	1.83
1711450--1711474	13	1.9	13	100	0	50	32	16	16	36	1.90
1711431--1711493	32	2.0	32	96	0	117	36	15	12	34	1.86
1711551--1711607	21	2.7	21	97	0	105	36	19	10	33	1.86
1711617--1711648	16	2.0	16	100	0	64	12	6	0	81	0.87
1712241--1713694	55	26.4	55	92	3	2210	20	20	30	28	1.98
1712401--1712486	26	3.2	26	67	20	77	17	18	34	29	1.94
1712672--1712816	26	5.3	26	66	21	91	19	18	33	28	1.96
1713006--1713091	26	3.2	26	65	20	68	18	18	33	29	1.95
1714676--1714728	21	2.5	21	81	6	63	0	7	7	84	0.76
1714654--1714728	23	3.1	23	80	5	78	0	12	5	82	0.82
1723795--1723843	23	2.1	24	85	11	66	38	2	12	46	1.53
1725207--1725235	2	14.5	2	100	0	58	51	0	0	48	1.00
1726631--1726659	13	2.1	14	93	6	51	62	0	0	37	0.96
1728513--1728548	14	2.5	15	90	4	56	50	0	0	50	1.00
1729304--1729358	24	2.4	23	81	6	58	47	5	0	47	1.25
1729517--1729548	12	2.7	12	95	0	55	62	6	0	31	1.20
1729057--1729717	230	2.8	232	87	4	916	49	5	2	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729629--1729694	29	2.4	26	80	14	71	56	3	1	39	1.24
1729751--1729795	23	2.0	23	86	8	65	42	4	2	51	1.34
1729940--1730016	30	2.8	28	78	20	74	53	0	0	46	1.00
1731433--1731490	16	3.5	17	76	23	61	51	0	0	48	1.00
1731420--1731504	34	2.5	33	79	9	91	56	0	1	42	1.07
1731423--1731499	40	1.9	40	82	10	95	55	0	1	42	1.07
1732096--1732150	18	2.9	19	84	10	60	32	0	3	63	1.12
1732710--1732759	3	16.3	3	91	4	82	66	2	0	32	1.03
1738756--1738784	3	9.7	3	100	0	58	68	0	31	0	0.89
1740176--1740250	28	2.6	28	85	8	89	48	8	0	44	1.32
1740926--1740986	22	2.7	23	75	10	63	47	0	0	52	1.00
1741187--1741226	21	1.9	21	85	10	55	50	0	0	50	1.00
1741190--1741233	16	2.5	17	85	10	54	54	0	0	45	0.99
1741552--1741630	25	3.1	24	75	14	70	48	0	0	51	1.00
1741552--1741649	47	2.0	50	80	5	112	52	1	0	46	1.07
1741891--1741927	16	2.3	16	86	13	58	54	0	0	45	1.00
1741890--1741927	17	2.3	16	90	4	58	52	0	0	47	1.00
1742129--1742181	18	3.1	17	78	15	56	32	1	0	66	1.03
1742478--1742527	26	2.0	25	88	11	75	60	0	0	40	0.97
1742686--1742729	14	3.2	14	83	6	63	50	0	2	47	1.13
1742681--1742753	27	2.8	26	77	8	67	49	0	4	46	1.21
1742719--1742784	33	2.2	30	81	13	73	53	0	1	45	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1742978--1743022	3	15.0	3	100	0	90	33	0	0	66	0.92
1744764--1744812	25	2.0	25	83	0	62	57	4	0	38	1.18
1746345--1746370	2	13.0	2	100	0	52	50	0	0	50	1.00
1752544--1752597	14	3.9	14	76	16	51	50	0	0	50	1.00
1755872--1755905	17	2.0	17	94	0	59	73	0	0	26	0.83
1756593--1756656	30	2.2	29	94	2	110	15	12	3	68	1.32
1756594--1756664	30	2.5	28	88	11	101	15	12	2	69	1.31
1757840--1757874	3	11.7	3	100	0	70	65	0	0	34	0.93
1765088--1765120	2	16.5	2	100	0	66	51	0	48	0	1.00
1765371--1765440	34	2.1	34	100	0	140	21	0	38	40	1.54

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