genome.fa.s43.2.7.7.80.10.50.1000.14.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

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  ( 2200 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)
1620227--1620271	22	2.1	21	87	4	63	64	2	0	33	1.06
1622989--1623023	14	2.5	14	86	13	54	57	2	0	40	1.14
1628041--1628095	19	3.1	17	85	12	74	47	0	0	52	1.00
1629018--1629053	2	18.0	2	100	0	72	50	0	0	50	1.00
1629472--1629537	22	3.0	21	82	10	71	60	1	0	37	1.06
1629507--1629552	23	1.9	25	86	8	69	54	2	0	43	1.12
1629673--1629705	4	8.2	4	93	0	57	27	21	51	0	1.48
1629675--1629715	8	5.1	8	93	0	55	34	14	51	0	1.43
1629675--1629713	12	3.2	12	92	0	60	33	15	51	0	1.44
1629851--1629886	2	18.0	2	94	0	63	0	52	0	47	1.00
1629902--1629953	20	2.5	20	81	12	61	57	0	0	42	0.98
1630020--1630077	20	3.0	20	80	5	57	43	1	0	55	1.10
1630042--1630097	20	2.9	19	81	5	51	50	1	1	46	1.22
1630152--1630190	18	2.3	16	86	8	51	41	0	0	58	0.98
1630119--1630222	32	3.3	29	77	16	86	41	0	0	58	0.98
1630495--1630533	3	13.0	3	100	0	78	66	0	0	33	0.92
1630720--1630771	25	2.1	25	85	7	70	50	0	1	48	1.12
1633286--1633326	21	2.0	21	85	9	57	60	0	0	39	0.96
1634617--1634650	14	2.4	14	85	0	50	29	0	0	70	0.87
1637265--1637314	26	2.0	25	88	4	73	42	2	0	56	1.11
1638440--1638478	18	2.2	18	86	9	53	51	5	25	17	1.66
1639083--1639148	26	2.6	25	76	9	62	57	3	1	37	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639227--1639264	14	2.7	14	84	8	51	28	2	0	68	1.03
1639257--1639323	27	2.5	27	83	11	93	47	0	0	52	1.00
1639288--1639326	18	2.2	18	90	4	62	51	0	0	48	1.00
1639241--1639363	17	7.3	17	67	17	51	40	0	0	59	0.97
1640928--1640998	28	2.6	28	77	16	69	52	0	0	47	1.00
1641429--1641494	29	2.2	29	86	5	87	46	0	1	51	1.10
1641559--1641619	32	1.9	32	83	12	81	54	1	1	42	1.20
1649238--1649293	18	3.0	18	77	15	60	30	0	0	69	0.89
1649234--1649286	27	2.0	26	89	10	81	32	0	0	67	0.91
1652343--1652373	11	2.8	11	95	0	53	38	3	0	58	1.15
1652337--1652397	32	2.0	30	87	6	86	32	6	0	60	1.22
1653355--1653389	12	2.6	14	82	17	56	68	0	0	31	0.90
1653546--1653574	13	2.1	14	93	6	51	51	0	0	48	1.00
1654745--1654791	21	2.2	22	85	11	62	40	0	4	55	1.19
1655292--1655335	18	2.5	18	85	3	54	61	0	2	36	1.09
1655462--1655539	40	2.0	40	82	10	97	46	2	7	43	1.46
1655792--1655826	17	2.2	15	90	10	52	80	0	8	11	0.92
1656524--1656567	21	2.1	21	87	8	63	45	0	0	54	0.99
1656580--1656629	20	2.5	20	84	12	68	66	0	0	34	0.92
1656580--1656632	26	2.0	26	89	7	81	64	0	0	35	0.94
1656596--1656681	45	1.9	45	81	13	106	52	0	0	47	1.00
1656603--1656695	38	2.5	35	77	15	98	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656639--1656668	14	2.2	14	94	5	53	56	0	0	43	0.99
1656658--1656715	22	2.7	20	82	12	62	56	0	0	43	0.99
1659821--1659857	2	19.0	2	94	5	67	48	0	0	51	1.00
1660003--1660033	14	2.2	14	94	0	53	70	0	6	22	1.09
1661697--1661770	24	3.1	24	65	16	64	52	0	0	47	1.00
1661681--1661776	48	2.1	45	84	9	124	54	0	0	45	0.99
1661689--1661740	12	3.9	13	77	20	54	57	0	0	42	0.98
1661700--1661770	15	4.5	15	72	8	61	52	0	0	47	1.00
1662008--1662070	22	3.0	21	80	13	58	49	1	1	47	1.20
1668394--1668432	18	2.2	18	85	0	51	46	2	0	51	1.14
1669153--1669183	13	2.4	13	94	0	53	0	9	0	90	0.46
1669320--1669363	14	3.2	13	83	6	52	20	0	4	75	0.98
1670398--1670428	2	15.5	2	93	0	53	48	3	0	48	1.17
1671598--1671720	11	11.1	11	69	20	60	57	1	1	39	1.18
1671598--1671737	50	2.8	50	75	14	137	55	2	2	39	1.27
1671662--1671712	6	9.0	6	75	12	54	60	0	0	39	0.97
1671654--1671711	17	3.5	17	79	11	59	58	0	0	41	0.98
1674960--1674996	19	1.9	19	88	0	56	62	2	0	35	1.10
1675697--1675744	2	24.5	2	81	12	55	43	0	4	52	1.20
1675710--1675750	21	2.0	21	90	0	64	39	0	4	56	1.21
1679036--1679090	28	2.0	28	82	7	67	52	0	5	41	1.24
1688664--1688694	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1689064--1689105	2	21.0	2	100	0	84	50	0	0	50	1.00
1689164--1689206	16	2.6	17	82	14	54	48	0	0	51	1.00
1689344--1689378	12	2.9	12	95	0	61	62	0	5	31	1.18
1689347--1689378	6	5.3	6	92	0	55	62	0	3	34	1.11
1690164--1690555	175	2.2	175	97	0	739	28	16	19	34	1.94
1690991--1691030	2	20.0	2	100	0	80	50	0	0	50	1.00
1692098--1692207	13	8.8	13	68	16	63	40	0	0	59	0.98
1692170--1692252	42	2.0	40	81	4	94	50	1	0	48	1.08
1692943--1692996	2	27.0	2	84	0	72	48	1	3	46	1.30
1693482--1693515	14	2.4	14	90	5	50	47	0	0	52	1.00
1693950--1693974	8	3.1	8	100	0	50	64	0	0	36	0.94
1695340--1695370	2	15.5	2	93	0	53	51	3	0	45	1.17
1699293--1699347	27	2.0	28	82	10	69	70	1	9	18	1.22
1700024--1700073	19	2.4	21	80	9	59	52	0	0	48	1.00
1702121--1702176	6	9.5	6	74	18	55	66	0	0	33	0.92
1702130--1702176	11	4.3	11	84	10	69	65	0	0	34	0.93
1702118--1702183	22	2.8	24	82	17	86	63	0	0	36	0.95
1702386--1702430	17	2.7	17	86	10	58	44	0	0	55	0.99
1702386--1702429	15	2.8	15	86	6	52	43	0	0	56	0.99
1702875--1702906	2	16.0	2	93	0	55	50	3	0	46	1.17
1703047--1703076	7	4.3	7	95	0	51	36	0	0	63	0.95
1703046--1703080	15	2.4	15	85	4	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1704259--1704310	24	2.2	23	83	10	61	71	0	17	11	1.15
1704843--1704884	22	1.9	22	90	0	66	42	23	0	33	1.55
1708031--1708076	24	1.9	24	86	8	67	28	0	0	71	0.86
1710473--1710506	2	17.0	2	100	0	68	0	50	0	50	1.00
1718470--1718499	15	1.9	16	93	6	53	53	0	0	46	1.00
1718459--1718505	21	2.2	21	84	0	58	48	2	0	48	1.13
1719841--1719898	21	2.8	20	72	25	57	36	1	1	60	1.17
1719959--1720033	28	2.8	26	80	11	80	33	1	1	64	1.11
1719953--1720038	11	8.5	11	68	17	60	33	2	1	62	1.15
1720445--1720495	10	5.2	10	80	19	63	37	1	0	60	1.08
1720445--1720507	20	3.2	20	84	4	56	38	1	0	60	1.07
1720439--1720500	30	2.1	30	88	8	92	38	1	0	59	1.07
1721204--1721253	17	3.1	17	74	11	59	46	0	0	54	1.00
1721233--1721294	16	3.6	16	72	14	52	33	0	1	64	1.03
1721273--1721320	23	2.1	23	84	7	62	35	0	0	64	0.94
1721230--1721328	39	2.6	39	76	6	105	33	0	1	65	0.99
1721276--1721328	16	3.3	16	74	10	54	32	0	0	67	0.91
1721493--1721521	5	5.8	5	100	0	58	82	0	0	17	0.66
1723416--1723457	12	3.6	12	83	6	59	30	0	0	69	0.89
1723409--1723457	23	2.1	23	88	7	73	32	0	0	67	0.91
1723498--1723536	18	2.1	19	90	9	62	64	10	5	20	1.44
1723702--1723729	14	2.0	14	100	0	56	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1724220--1724244	11	2.3	11	100	0	50	16	0	0	84	0.63
1724286--1724348	21	3.0	21	75	11	58	53	1	1	42	1.19
1730230--1730290	27	2.2	28	88	5	97	37	4	6	50	1.50
1735045--1735115	36	1.9	37	83	13	94	45	5	4	45	1.46
1738171--1738226	28	2.0	28	96	0	103	46	16	8	28	1.77
1740825--1740893	18	3.7	17	69	25	50	59	0	0	40	0.97
1740817--1740858	22	1.9	22	85	0	57	54	0	0	45	0.99
1741385--1741440	3	18.7	3	100	0	112	33	0	0	66	0.92
1741686--1741729	22	2.0	22	82	8	54	34	0	2	63	1.07
1741699--1741758	19	3.0	20	76	13	54	38	0	0	61	0.96

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