genome.fa.s114.2.7.7.80.10.50.1000.7.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: Scaffold114
Parameters: 2 7 7 80 10 50 1000
Length:  3219552

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

This is table  7  of  13  ( 1458 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)
1581150--1581188	17	2.4	17	82	4	53	41	0	0	58	0.98
1581278--1581323	15	3.0	16	71	9	51	47	0	0	52	1.00
1583411--1583457	24	2.0	23	84	12	60	51	0	4	44	1.21
1583619--1583662	23	2.0	22	82	13	54	43	0	0	56	0.99
1584420--1584449	2	15.0	2	100	0	60	0	50	0	50	1.00
1584554--1584580	2	13.5	2	100	0	54	0	51	0	48	1.00
1592919--1592943	8	3.1	8	100	0	50	76	0	0	24	0.80
1594026--1594060	2	17.5	2	100	0	70	0	51	0	48	1.00
1594500--1594570	27	2.6	26	77	14	72	45	0	0	54	0.99
1594653--1594682	6	5.0	6	91	0	51	63	0	0	36	0.95
1595363--1595401	19	2.2	18	90	9	62	28	2	0	69	1.02
1595348--1595401	16	3.3	15	78	19	54	31	1	1	64	1.14
1597548--1597581	15	2.3	15	89	0	50	55	0	5	38	1.24
1597566--1597612	18	2.6	17	84	15	60	61	0	2	36	1.08
1597548--1597617	24	2.9	23	74	18	70	58	0	2	38	1.13
1597583--1597632	18	2.9	18	77	16	52	68	0	2	30	1.01
1597642--1597690	19	2.7	19	84	6	57	53	2	0	44	1.12
1597676--1597740	15	4.5	15	76	21	59	63	1	0	35	1.04
1598857--1598897	13	3.2	13	83	13	57	43	0	0	56	0.99
1598924--1598966	20	2.1	21	86	4	61	58	0	0	41	0.98
1601771--1601800	2	15.0	2	100	0	60	50	0	50	0	1.00
1605119--1605144	2	13.0	2	100	0	52	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1616262--1616297	18	1.9	19	88	5	56	25	30	19	25	1.98
1617485--1617515	6	5.2	6	96	0	53	32	32	19	16	1.94
1617514--1617538	5	5.0	5	100	0	50	60	20	20	0	1.37
1617763--1617810	25	1.9	25	83	8	62	45	0	0	54	0.99
1622498--1622557	2	30.0	2	93	0	102	50	3	0	46	1.18
1631637--1631665	15	2.0	15	93	6	51	65	0	0	34	0.93
1637310--1637365	19	3.0	19	82	12	55	33	0	0	66	0.92
1638608--1638639	15	2.3	15	89	10	50	34	0	0	65	0.93
1645103--1645207	32	3.2	32	77	12	90	39	1	0	58	1.16
1645144--1645190	20	2.3	20	82	7	60	38	2	0	59	1.09
1645156--1645248	33	3.0	30	80	13	91	47	1	0	51	1.07
1648853--1648879	2	13.5	2	100	0	54	51	0	48	0	1.00
1649979--1650008	2	15.0	2	92	0	51	46	0	3	50	1.18
1657224--1657257	17	1.9	18	94	5	61	47	0	0	52	1.00
1657477--1657536	23	3.0	20	73	26	63	45	1	0	53	1.10
1662919--1662976	22	2.6	23	91	5	100	43	0	0	56	0.99
1663021--1663082	26	2.5	25	87	7	83	54	0	1	43	1.09
1664831--1664897	22	3.1	21	74	16	66	44	2	1	50	1.26
1664840--1664900	21	3.1	18	74	21	59	45	3	1	49	1.28
1671624--1671787	86	1.9	85	86	6	231	43	5	9	41	1.61
1697851--1697897	11	4.2	11	78	13	51	38	0	0	61	0.96
1697854--1697898	22	2.0	23	86	4	65	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1697841--1697895	22	2.7	20	76	13	58	36	1	0	61	1.06
1699563--1699595	1	33.0	1	93	0	57	0	3	0	96	0.20
1706204--1706263	27	2.1	28	81	9	68	50	0	0	50	1.00
1706649--1706685	8	4.6	8	93	6	58	64	0	0	35	0.94
1706642--1706685	15	2.9	15	87	12	63	65	0	0	34	0.93
1712921--1712968	2	24.0	2	100	0	96	0	50	0	50	1.00
1717195--1717260	27	2.4	27	80	12	73	54	0	1	43	1.09
1717404--1717449	13	3.5	13	82	14	58	34	0	2	63	1.07
1717404--1717446	14	3.3	12	84	12	50	32	0	2	65	1.06
1717404--1717460	26	2.1	27	84	9	73	33	1	5	59	1.30
1717770--1717807	13	2.6	14	84	16	51	39	0	0	60	0.97
1720581--1720609	2	14.5	2	100	0	58	51	0	0	48	1.00
1721065--1721091	6	4.5	6	100	0	54	33	0	48	18	1.49
1725624--1725748	33	3.9	32	87	8	157	45	10	1	42	1.48
1725631--1725721	2	47.0	2	76	6	89	48	7	1	42	1.39
1726953--1726989	19	1.9	19	89	10	58	54	0	0	45	1.00
1732100--1732126	14	1.9	14	100	0	54	44	14	11	29	1.80
1740652--1740684	2	17.0	2	87	6	50	48	0	3	48	1.17
1743492--1743519	2	14.0	2	100	0	56	50	0	0	50	1.00
1744052--1744078	7	3.9	7	100	0	54	14	0	0	85	0.61
1744836--1744899	16	3.9	17	73	16	55	54	4	0	40	1.21
1746501--1746548	2	24.0	2	83	8	62	50	2	2	45	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1746503--1746575	26	2.8	26	89	4	103	50	2	5	41	1.40
1748465--1748500	17	2.1	17	90	10	56	11	11	0	77	0.99
1748662--1748686	12	2.1	12	100	0	50	76	8	16	0	1.02
1750971--1751056	44	2.0	42	90	4	136	37	13	11	37	1.82
1752740--1752767	3	9.3	3	100	0	56	67	0	0	32	0.91
1760355--1760384	14	2.1	15	93	6	53	26	0	0	73	0.84
1760275--1760406	52	2.6	49	75	17	126	47	0	0	52	1.00
1760389--1760426	18	2.1	19	90	5	60	68	0	0	31	0.90
1760450--1760481	17	1.9	17	93	6	57	53	0	0	46	1.00
1760456--1760507	27	2.0	26	89	10	81	53	0	1	44	1.11
1760560--1760610	23	2.2	24	82	10	61	52	1	0	45	1.12
1760617--1760650	16	2.1	16	89	10	52	61	0	0	38	0.96
1760680--1760712	17	1.9	17	93	0	57	45	0	0	54	0.99
1760750--1760792	19	2.3	19	84	4	61	69	0	2	27	1.00
1761223--1761291	27	2.4	30	79	13	76	37	0	1	60	1.06
1761225--1761362	62	2.3	58	76	18	133	40	2	0	56	1.16
1762334--1762364	2	15.5	2	100	0	62	48	0	0	51	1.00
1763755--1763809	25	2.1	28	86	10	80	43	0	0	56	0.99
1766083--1766121	4	9.2	4	83	10	51	48	20	2	28	1.62
1768319--1768353	13	2.5	14	90	9	54	51	0	0	48	1.00
1768794--1768823	2	15.0	2	100	0	60	50	0	0	50	1.00
1770055--1770106	17	3.2	17	82	15	58	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1770999--1771063	33	2.0	33	100	0	130	38	12	9	40	1.75
1771372--1771452	42	1.9	42	97	0	153	32	28	4	34	1.79
1771706--1771746	2	20.5	2	100	0	82	51	0	0	48	1.00
1781141--1781173	17	2.0	17	88	5	50	36	0	9	54	1.32
1786776--1786802	14	1.9	14	100	0	54	18	14	44	22	1.86
1788441--1788509	35	2.0	34	94	2	120	36	15	21	26	1.94
1792132--1792219	10	8.7	10	75	12	56	37	0	0	62	0.95
1792169--1792219	9	5.6	9	77	11	50	31	0	0	68	0.90
1792161--1792232	23	3.1	23	78	9	74	30	0	0	69	0.89
1792125--1792217	27	3.1	29	71	17	75	38	0	0	61	0.96
1792177--1792219	19	2.4	18	80	7	52	32	0	0	67	0.91
1792844--1792893	20	2.6	21	81	15	63	52	0	0	48	1.00
1799228--1799275	24	2.0	24	84	8	62	50	0	2	47	1.12
1800625--1800778	6	26.8	6	65	24	66	59	0	0	40	1.02
1800664--1800717	16	3.4	16	76	16	58	59	0	0	40	0.98
1800650--1800719	16	4.1	16	71	22	54	60	0	0	40	0.97
1800625--1800786	22	7.9	20	70	20	88	59	0	0	40	1.02
1800711--1800791	7	11.4	7	74	16	51	60	2	0	37	1.10
1801791--1801819	2	14.5	2	100	0	58	0	48	0	51	1.00
1806392--1806428	2	18.5	2	100	0	74	51	0	0	48	1.00
1808045--1808095	25	2.1	25	82	10	61	64	0	0	35	0.94
1814144--1814188	23	2.0	23	90	0	72	17	4	4	73	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814457--1814806	21	17.5	20	66	17	122	52	6	3	37	1.44
1814743--1814796	10	5.3	10	75	20	58	53	3	0	42	1.18
1814696--1814796	41	2.4	41	87	8	134	51	6	1	39	1.40
1814812--1815317	253	2.0	254	92	3	847	45	6	8	39	1.60
1818817--1819009	101	1.9	102	87	3	282	25	12	16	45	1.83
1819399--1819438	20	2.0	20	85	9	55	15	17	7	60	1.57
1834743--1834772	15	2.0	15	93	0	51	23	13	3	60	1.48
1838036--1838229	102	1.9	102	88	2	291	24	13	17	44	1.84
1842906--1842976	19	3.6	19	75	11	72	19	12	4	63	1.45
1850520--1850553	3	11.3	3	100	0	68	64	0	0	35	0.94

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