genome.fa.s66.2.7.7.80.10.50.1000.9.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: Scaffold66
Parameters: 2 7 7 80 10 50 1000
Length:  4623749

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  9  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)
1478050--1478122	30	2.4	30	81	6	85	45	0	0	54	0.99
1488665--1488724	22	2.7	22	75	10	68	28	0	5	66	1.12
1490281--1490321	19	2.2	19	86	8	57	60	0	2	36	1.10
1491206--1491239	2	17.0	2	93	0	59	52	0	47	0	1.00
1496531--1496570	2	20.5	2	94	5	73	50	0	0	50	1.00
1496810--1496865	4	14.0	4	80	0	67	44	3	5	46	1.43
1496810--1496861	12	4.3	12	90	0	77	44	3	5	46	1.45
1497282--1497318	2	18.5	2	100	0	74	0	51	0	48	1.00
1497403--1497450	24	2.0	23	88	11	71	45	0	0	54	0.99
1497414--1497483	35	2.0	35	86	10	99	44	0	0	55	0.99
1497623--1497658	18	2.0	18	88	0	54	36	2	0	61	1.11
1501954--1501987	14	2.3	15	90	5	52	29	2	0	67	1.05
1503024--1503078	23	2.5	22	91	8	85	36	0	0	63	0.95
1503891--1503921	3	10.3	3	100	0	62	32	35	0	32	1.58
1508625--1508673	17	2.8	18	81	12	57	32	0	2	65	1.04
1509865--1509899	18	1.9	18	88	0	52	20	5	45	28	1.73
1510497--1510539	21	2.0	21	86	8	61	44	0	0	55	0.99
1511224--1511275	19	2.5	20	81	12	61	59	0	0	40	0.97
1511794--1511878	39	2.2	40	78	17	101	48	0	0	51	1.00
1513425--1513479	16	3.4	16	78	16	69	56	0	0	43	0.99
1513439--1513493	25	2.2	26	80	12	69	52	0	0	47	1.00
1514545--1514571	3	9.0	3	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1519344--1519388	17	2.7	17	87	12	67	57	0	0	42	0.98
1526642--1526710	18	3.5	19	76	18	70	57	0	4	37	1.18
1526967--1527004	9	4.2	9	83	9	51	52	0	0	47	1.00
1527746--1527803	22	2.8	21	80	15	66	62	0	6	31	1.22
1527750--1527826	12	6.3	12	72	12	59	63	0	5	31	1.16
1527775--1527827	17	3.1	17	83	10	63	66	0	3	30	1.10
1527853--1527914	32	1.9	32	87	6	90	50	3	0	46	1.17
1528531--1528591	27	2.4	24	86	8	77	65	0	1	32	1.02
1528545--1528574	15	2.0	15	93	0	51	63	0	0	36	0.95
1528536--1528591	12	4.4	12	77	16	51	66	0	1	32	1.03
1534777--1534831	22	2.5	22	82	8	69	47	0	0	52	1.00
1537439--1537494	16	3.4	16	71	11	51	55	0	0	44	0.99
1538888--1538937	22	2.3	22	89	3	75	6	26	2	66	1.26
1544791--1544824	15	2.3	15	89	0	50	35	11	8	44	1.72
1549219--1549244	13	2.0	13	100	0	52	69	0	0	30	0.89
1549659--1549710	27	1.9	27	92	0	86	48	11	1	38	1.51
1549875--1549910	2	18.0	2	100	0	72	50	0	0	50	1.00
1551686--1551758	16	4.6	16	77	13	62	39	0	0	60	0.97
1552046--1552076	10	3.1	10	95	0	53	87	0	12	0	0.55
1552437--1552470	18	1.9	18	88	5	52	44	0	0	55	0.99
1553817--1553856	15	2.6	16	80	8	55	30	0	12	57	1.36
1554323--1554354	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554630--1554664	2	17.5	2	100	0	70	51	0	0	48	1.00
1556026--1556061	18	2.0	18	88	0	54	2	2	13	80	0.93
1563030--1563106	39	2.1	37	84	13	99	58	3	0	37	1.17
1567005--1567038	4	8.8	4	93	6	61	23	0	0	76	0.79
1567716--1567779	12	5.6	12	80	7	71	67	0	1	31	1.00
1567716--1567779	23	2.8	23	76	9	69	67	0	1	31	1.00
1567693--1567771	35	2.2	35	84	4	95	64	1	2	31	1.15
1567743--1567809	27	2.6	27	80	17	79	64	2	0	32	1.09
1567722--1567775	18	3.1	18	79	12	67	66	0	1	31	1.02
1568263--1568288	2	13.0	2	100	0	52	50	0	0	50	1.00
1570800--1570837	16	2.4	16	90	0	67	52	0	2	44	1.14
1570867--1570891	11	2.3	11	100	0	50	52	8	12	28	1.66
1572278--1572316	18	2.2	17	86	4	51	46	0	0	53	1.00
1577557--1577583	2	13.5	2	100	0	54	48	0	0	51	1.00
1578602--1578654	26	2.0	27	82	10	65	49	0	0	50	1.00
1578656--1578713	20	2.8	20	76	5	53	55	0	5	39	1.22
1579736--1579796	24	2.5	24	75	17	63	50	0	0	49	1.00
1579808--1579842	12	2.7	13	86	13	54	42	0	0	57	0.99
1580655--1580695	20	2.0	21	95	4	75	46	0	0	53	1.00
1584508--1584534	2	13.5	2	100	0	54	48	0	0	51	1.00
1588164--1588204	17	2.3	19	84	12	52	53	0	0	46	1.00
1589849--1589893	23	2.0	23	82	8	56	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589932--1590000	25	2.7	25	82	8	68	55	0	0	44	0.99
1590557--1590629	33	2.2	34	87	7	105	50	5	1	42	1.34
1590769--1590817	23	2.0	25	84	7	66	55	0	0	44	0.99
1590778--1590824	23	2.0	23	84	8	60	55	0	0	44	0.99
1592830--1592884	20	2.8	20	80	5	67	60	0	0	40	0.97
1593324--1593389	29	2.2	30	81	10	73	46	0	1	51	1.10
1593347--1593414	11	6.1	11	76	17	61	47	0	0	52	1.00
1593378--1593421	21	2.1	22	87	8	65	38	0	2	59	1.10
1595173--1595243	20	3.5	20	75	7	56	40	0	2	56	1.14
1595214--1595262	15	2.9	18	71	22	52	44	0	0	55	0.99
1595207--1595269	32	2.0	31	87	9	92	41	0	0	58	0.98
1595204--1595255	15	3.2	16	72	22	54	40	0	0	59	0.97
1596484--1596508	9	2.8	9	100	0	50	44	0	0	56	0.99
1597402--1597500	29	3.4	29	87	4	146	46	14	4	35	1.63
1597491--1597537	23	2.0	24	95	4	87	65	12	0	21	1.25
1599872--1599902	2	15.5	2	100	0	62	48	0	0	51	1.00
1600241--1600280	2	20.0	2	100	0	80	50	0	0	50	1.00
1599766--1601004	376	3.3	371	85	5	1580	32	10	10	46	1.73
1600617--1600656	2	20.0	2	100	0	80	50	0	0	50	1.00
1607026--1607108	32	2.6	32	86	3	105	22	16	20	39	1.92
1607026--1607098	16	4.6	16	82	0	74	20	16	21	41	1.90
1610869--1610947	5	15.4	5	71	10	61	46	1	0	51	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610926--1610985	29	2.1	29	84	9	79	55	0	0	45	0.99
1610868--1610972	43	2.4	43	77	15	101	49	0	0	49	1.07
1611422--1611455	12	2.8	13	82	17	54	44	0	0	55	0.99
1611602--1611642	18	2.3	18	82	0	55	48	2	4	43	1.37
1627008--1627046	4	9.8	4	88	0	51	43	0	0	56	0.99
1627008--1627046	6	6.5	6	90	0	51	43	0	0	56	0.99
1627008--1627046	10	3.9	10	89	0	51	43	0	0	56	0.99
1627154--1627186	2	16.5	2	100	0	66	51	0	0	48	1.00
1631066--1631130	31	2.1	30	86	8	87	50	1	1	46	1.20
1631361--1631405	20	2.2	20	88	0	63	53	0	0	46	1.00
1632127--1632221	42	2.2	42	83	10	113	54	0	0	45	0.99
1633429--1633486	24	2.4	24	97	0	107	24	17	24	34	1.96
1636544--1636608	16	4.0	16	78	9	69	36	0	6	56	1.24
1636574--1636634	16	4.0	16	79	8	65	32	0	3	63	1.10
1636770--1636858	28	3.2	28	71	19	78	40	1	1	57	1.13
1636816--1636858	15	2.9	15	77	22	54	39	0	0	60	0.97
1637119--1637186	23	2.9	25	76	10	65	35	0	2	61	1.11
1637133--1637179	16	2.9	17	78	6	53	36	0	2	61	1.08
1637213--1637261	20	2.4	21	86	10	66	57	2	4	36	1.30
1637213--1637256	21	2.1	21	87	8	63	56	2	4	36	1.32
1638330--1638387	17	3.5	17	77	9	57	48	0	0	51	1.00
1641204--1641340	68	2.0	68	97	0	256	41	9	4	44	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641822--1641848	2	13.5	2	100	0	54	51	0	0	48	1.00
1641981--1642037	24	2.4	24	88	8	82	50	0	1	47	1.11
1642055--1642094	18	2.1	20	86	9	57	50	7	0	42	1.30
1643331--1643372	21	2.0	22	86	13	61	45	0	0	54	0.99
1645431--1645495	19	3.0	23	75	25	70	49	0	1	49	1.10
1648807--1648914	56	2.0	56	82	12	138	57	0	1	40	1.09
1648963--1648995	16	2.1	16	88	11	50	57	0	0	42	0.98
1649612--1649676	3	21.7	3	90	0	85	7	30	0	61	1.24
1652769--1652831	31	2.0	32	87	9	94	49	4	9	36	1.57
1652843--1652905	21	3.0	20	72	22	58	68	1	1	28	1.08

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