genome.fa.s173.2.7.7.80.10.50.1000.12.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  12  of  16  ( 1814 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)
1523263--1523340	40	2.0	39	82	7	95	42	14	10	33	1.79
1523800--1523825	11	2.4	11	100	0	52	65	7	0	26	1.20
1524030--1524064	16	2.2	16	89	0	52	57	0	0	42	0.99
1527647--1527829	50	3.7	50	85	1	242	31	14	22	31	1.93
1528317--1528389	32	2.3	33	83	11	98	34	6	8	50	1.59
1529323--1529347	11	2.3	11	100	0	50	60	0	0	40	0.97
1530322--1530377	29	1.9	30	88	3	87	67	0	0	32	0.91
1530452--1530485	15	2.2	16	89	5	52	61	14	0	23	1.33
1530627--1530666	6	6.7	6	88	0	53	5	15	7	72	1.24
1530627--1530666	12	3.3	12	89	0	62	5	15	7	72	1.24
1530712--1530780	22	3.2	22	65	29	58	46	2	2	47	1.32
1530714--1530798	42	2.0	42	90	0	134	47	4	3	44	1.41
1537649--1537693	21	2.1	21	84	8	56	46	22	24	6	1.75
1544740--1544958	109	2.0	109	97	0	411	34	8	5	51	1.56
1549105--1549180	32	2.4	33	80	10	88	31	5	7	55	1.51
1549797--1549831	17	2.1	17	100	0	70	34	22	5	37	1.78
1550750--1550784	17	2.1	17	94	0	61	34	20	5	40	1.76
1548763--1551523	953	2.9	956	89	4	4163	38	10	8	42	1.70
1551047--1551123	32	2.4	33	82	6	95	32	9	9	49	1.66
1551560--1551589	15	2.0	15	100	0	60	20	26	46	6	1.75
1552503--1552558	22	2.5	24	80	16	75	42	0	0	57	0.99
1552516--1552564	26	1.9	25	83	4	62	40	0	0	59	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553152--1553193	22	1.9	22	85	0	57	57	4	7	30	1.47
1553692--1553764	22	3.4	22	71	21	82	49	2	1	46	1.24
1553698--1553782	42	2.0	42	93	0	143	48	4	2	44	1.36
1554621--1554667	13	3.5	13	83	13	60	34	0	0	65	0.93
1554613--1554667	27	2.0	28	92	3	94	36	0	0	63	0.95
1554614--1554684	15	4.8	15	78	18	62	35	0	0	64	0.94
1554620--1554681	15	4.5	13	80	15	63	35	0	0	64	0.94
1556526--1556630	27	3.9	27	77	6	99	46	22	8	21	1.78
1562069--1562108	19	2.1	19	85	0	53	70	7	10	12	1.35
1566351--1566428	20	3.9	19	78	6	75	41	14	11	33	1.81
1566351--1566428	40	2.0	39	84	2	102	41	14	11	33	1.81
1566886--1566911	11	2.4	11	100	0	52	65	7	0	26	1.20
1567116--1567150	16	2.2	16	89	0	52	57	0	0	42	0.99
1568825--1568854	2	15.0	2	100	0	60	50	0	0	50	1.00
1568863--1568892	15	2.0	15	100	0	60	33	20	20	26	1.97
1570406--1570437	14	2.3	14	100	0	64	43	0	25	31	1.55
1574287--1574370	34	2.5	34	98	0	159	41	2	5	50	1.40
1576670--1576853	50	3.7	50	89	0	278	30	16	22	29	1.96
1576670--1576853	100	1.8	100	92	0	314	30	16	22	29	1.96
1577976--1578010	17	2.1	17	100	0	70	34	17	5	42	1.73
1578930--1578964	17	2.1	17	94	0	61	34	20	5	40	1.76
1577202--1579734	954	2.7	954	95	0	4511	38	10	8	42	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580652--1580703	22	2.3	23	81	15	65	42	0	0	57	0.98
1580661--1580709	26	1.9	25	83	4	62	40	0	0	59	0.98
1580784--1580857	32	2.3	32	76	2	87	54	12	0	33	1.38
1580960--1581006	2	24.0	2	95	4	87	48	0	0	51	1.00
1581804--1581843	6	6.7	6	88	0	53	5	15	7	72	1.24
1581804--1581843	12	3.3	12	89	0	62	5	15	7	72	1.24
1581894--1581951	23	2.8	19	72	18	53	44	6	0	48	1.29
1582794--1582838	13	3.2	15	75	15	51	35	2	2	60	1.22
1582816--1582897	29	2.9	29	67	25	68	45	0	0	54	0.99
1585443--1585511	27	2.6	27	83	0	93	28	5	17	47	1.70
1590006--1590078	27	2.7	27	93	0	119	23	8	24	43	1.81
1590004--1590095	27	3.6	25	80	11	105	23	8	22	44	1.81
1590008--1590114	51	2.0	54	82	5	130	23	8	21	46	1.78
1591876--1591928	27	1.9	28	84	3	72	52	1	1	43	1.23
1591896--1591931	16	2.2	17	90	5	56	55	0	0	44	0.99
1591985--1592025	20	2.0	22	90	9	68	60	0	0	39	0.96
1592053--1592098	13	3.8	13	75	21	55	54	0	2	43	1.12
1592542--1592589	2	24.0	2	95	0	87	50	0	2	47	1.12
1595072--1595330	50	5.2	50	92	0	428	29	22	19	28	1.98
1595983--1596007	13	1.9	13	100	0	50	32	16	16	36	1.90
1595963--1596031	34	2.1	34	89	5	106	37	15	14	31	1.88
1596062--1596105	20	2.1	22	91	8	74	40	20	9	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602189--1602226	13	2.9	13	88	0	58	31	15	18	34	1.92
1604034--1604119	38	2.3	38	91	2	138	47	4	26	20	1.70
1604757--1604811	20	2.8	20	91	5	85	41	14	12	30	1.83
1604883--1604907	13	1.9	13	100	0	50	32	16	16	36	1.90
1604863--1604931	34	2.1	34	89	5	106	37	15	14	31	1.88
1604962--1605005	20	2.1	22	87	8	65	40	18	9	31	1.81
1609823--1610081	50	5.2	50	88	1	385	30	22	17	29	1.97
1610543--1610620	31	2.6	30	84	6	113	51	12	0	35	1.40
1611241--1611297	26	2.2	24	76	11	60	63	1	0	35	1.05
1611540--1611573	12	2.8	12	86	0	50	8	11	5	73	1.24
1611533--1611567	18	1.9	18	88	0	52	11	11	5	71	1.30
1611624--1611705	42	2.0	42	92	0	137	47	4	2	45	1.37
1611639--1611706	20	3.1	23	72	23	74	48	5	2	42	1.42
1616353--1616409	27	2.1	27	100	0	114	40	15	12	31	1.85
1620778--1620825	16	2.8	18	81	15	57	64	6	0	29	1.18
1620785--1620825	17	2.4	17	88	12	57	65	7	0	26	1.18
1621679--1621705	6	4.5	6	100	0	54	0	14	14	70	1.17
1623089--1623127	16	2.4	17	86	8	62	33	0	10	56	1.33
1624364--1624448	31	2.8	31	75	18	97	50	15	0	34	1.44
1624739--1624768	7	4.3	7	95	0	51	53	0	33	13	1.40
1625362--1625395	12	2.8	12	90	0	59	5	14	5	73	1.21
1625362--1625396	18	1.9	18	88	0	52	5	14	5	74	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1626111--1626149	14	2.8	14	84	0	51	69	7	2	20	1.26
1626350--1626415	15	4.6	14	77	19	66	34	1	0	63	1.04
1626346--1626390	15	3.2	15	84	15	69	35	0	0	64	0.94
1626945--1626988	22	2.0	22	82	8	54	45	2	2	50	1.27
1629004--1629066	27	2.3	27	86	0	81	33	3	19	44	1.66
1628997--1629077	27	3.0	26	73	7	72	29	4	18	46	1.70
1629052--1629109	24	2.4	24	88	0	80	31	6	18	43	1.77
1629065--1629117	24	2.2	24	96	0	97	22	9	22	45	1.81
1631655--1631700	21	2.1	22	84	4	58	30	19	30	19	1.97
1633583--1633655	27	2.7	27	91	0	110	24	6	23	45	1.77
1633581--1633672	27	3.6	25	78	11	96	26	7	20	45	1.77
1634238--1634294	25	2.3	25	90	6	89	57	0	0	42	0.98
1635454--1635489	16	2.2	17	90	5	56	55	0	0	44	0.99
1636814--1636850	12	3.1	12	100	0	74	51	0	8	40	1.32
1636799--1636872	24	3.1	23	72	12	78	50	2	12	35	1.54
1637788--1637821	2	17.0	2	100	0	68	50	0	0	50	1.00
1640043--1640156	36	3.1	37	83	5	133	42	7	8	40	1.65
1640823--1640849	3	9.0	3	100	0	54	33	33	33	0	1.58
1641170--1641217	5	9.6	5	100	0	96	39	0	0	60	0.97
1646437--1646475	21	1.9	21	89	5	62	61	0	0	38	0.96
1647566--1647613	2	24.0	2	82	0	60	43	2	6	47	1.40
1649295--1649319	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)
1649319--1649360	2	21.0	2	90	0	66	54	0	45	0	0.99
1651622--1651694	15	4.9	14	75	20	58	31	1	20	46	1.59
1651619--1651679	32	1.9	33	83	6	81	29	1	19	49	1.58
1655860--1657478	402	4.0	403	90	1	2483	30	15	20	33	1.94
1657868--1657936	27	2.4	28	80	9	77	30	40	0	28	1.57
1657885--1657937	27	2.0	27	92	0	88	32	39	0	28	1.57
1658266--1658459	36	5.2	36	67	11	122	31	7	21	39	1.81
1658297--1658429	39	3.5	39	68	10	112	29	7	21	41	1.81
1658261--1658489	75	3.1	75	87	0	332	31	7	20	40	1.80
1663685--1663720	18	2.1	17	89	5	54	66	2	0	30	1.06

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