genome.fa.s103.2.7.7.80.10.50.1000.14.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  14  of  21  ( 2458 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)
1541400--1541433	6	5.8	6	89	3	52	52	2	0	44	1.16
1541400--1541433	18	1.9	17	94	5	59	52	2	0	44	1.16
1542582--1542655	37	2.0	37	81	5	87	48	0	0	51	1.00
1542613--1542671	23	2.6	22	81	5	73	49	0	0	50	1.00
1542881--1542928	21	2.2	22	92	3	80	41	0	10	47	1.37
1543234--1543276	3	14.3	3	100	0	86	32	0	0	67	0.91
1543472--1543513	22	2.0	21	85	4	57	42	0	0	57	0.99
1543896--1543959	11	6.2	11	76	22	59	62	0	0	37	0.95
1543896--1543957	5	12.2	5	75	14	56	62	0	0	37	0.95
1544232--1544273	22	1.9	22	85	0	57	57	0	0	42	0.99
1544210--1544311	51	2.1	48	82	12	122	50	0	0	50	1.00
1545846--1545927	29	2.8	28	77	14	85	46	1	0	52	1.08
1545846--1545926	30	2.7	30	73	7	76	45	1	0	53	1.08
1546196--1546227	13	2.6	13	90	9	50	50	6	3	40	1.43
1546937--1546981	17	2.7	16	86	10	63	46	2	0	51	1.13
1546937--1547010	8	8.9	8	74	12	60	43	1	0	55	1.08
1546951--1547013	17	3.7	18	81	10	62	44	0	0	55	0.99
1548098--1548151	17	3.0	18	78	8	56	35	0	1	62	1.06
1548800--1548866	20	3.1	21	79	14	57	44	0	1	53	1.09
1554611--1554700	28	3.4	26	83	8	110	24	6	22	46	1.75
1559183--1559253	27	2.6	27	88	6	99	22	7	23	46	1.76
1559979--1560041	33	1.9	33	90	0	99	39	3	11	46	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560666--1560722	29	1.9	31	86	13	84	57	0	0	42	0.98
1560866--1560900	18	2.0	17	88	5	52	62	0	0	37	0.95
1560991--1561028	15	2.4	16	83	16	53	63	26	2	7	1.35
1563255--1563414	34	4.7	34	88	0	223	41	26	6	25	1.80
1565390--1565455	20	3.7	20	73	26	83	37	12	15	34	1.84
1565391--1565469	33	2.4	33	100	0	158	37	12	15	34	1.85
1565411--1565468	13	3.9	13	73	26	53	37	13	15	32	1.87
1565530--1565554	13	1.9	13	100	0	50	32	16	16	36	1.90
1565543--1565686	52	2.8	49	84	8	189	34	18	17	29	1.94
1565563--1565686	52	2.4	52	94	1	214	35	18	17	28	1.94
1571500--1571717	34	6.5	33	84	3	229	42	24	6	26	1.80
1571499--1571717	102	2.2	102	84	2	289	42	24	6	26	1.80
1574301--1574340	20	2.0	20	85	4	55	55	0	0	45	0.99
1575006--1575042	2	19.0	2	88	5	58	54	0	0	45	1.00
1575678--1575721	22	2.0	20	83	12	52	50	0	0	50	1.00
1575695--1575719	12	2.1	12	100	0	50	40	0	0	60	0.97
1579249--1579282	12	2.7	13	90	4	52	14	38	5	41	1.70
1581729--1581774	21	2.1	22	84	4	58	30	19	30	19	1.97
1584298--1584331	15	2.3	15	100	0	68	47	0	0	52	1.00
1586256--1586289	12	2.8	12	81	0	50	38	0	0	61	0.96
1586242--1586297	24	2.3	23	81	6	67	42	3	1	51	1.29
1588427--1588466	20	2.0	20	90	9	64	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)
1588991--1589033	19	2.2	20	83	4	52	55	0	2	41	1.12
1590181--1590234	16	3.4	16	72	23	51	44	1	0	53	1.11
1590552--1590606	24	2.5	20	76	18	56	65	7	0	27	1.19
1590558--1590605	24	2.0	23	88	4	69	66	8	0	25	1.19
1593122--1593194	32	2.3	31	85	4	92	36	5	6	50	1.52
1593960--1594078	61	1.9	62	96	1	222	48	6	6	37	1.56
1597263--1597304	18	2.3	18	87	0	66	35	4	4	54	1.42
1597286--1597341	26	2.2	25	90	9	87	41	0	3	55	1.17
1597303--1597374	20	3.7	21	69	23	59	45	0	1	52	1.09
1597441--1597479	6	6.3	6	88	5	60	43	0	2	53	1.14
1597776--1597810	2	17.0	2	88	5	52	48	2	2	45	1.32
1599860--1599903	22	1.9	24	86	9	65	27	4	0	68	1.09
1602281--1602324	23	1.9	23	90	0	70	59	6	0	34	1.24
1602314--1602347	13	2.7	13	90	4	52	61	0	0	38	0.96
1602530--1602577	19	2.5	19	82	3	60	47	0	0	52	1.00
1602530--1602579	20	2.7	19	84	9	59	46	0	0	54	1.00
1603375--1603430	27	2.1	27	83	12	71	46	1	1	50	1.22
1603570--1603611	23	2.0	21	86	13	59	42	0	0	57	0.99
1606269--1606336	28	2.5	26	84	15	93	44	1	0	54	1.09
1606270--1606330	29	2.1	28	88	8	88	45	1	0	52	1.10
1606448--1606501	26	2.2	24	86	6	72	57	1	0	40	1.09
1606631--1606664	17	2.0	17	88	0	50	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1607059--1607088	12	2.5	12	94	0	51	0	10	0	90	0.47
1608433--1608499	34	1.9	35	85	11	93	50	0	0	49	1.00
1608502--1608532	14	2.2	14	94	0	53	67	0	0	32	0.91
1614383--1614431	11	4.3	11	82	14	55	63	0	2	34	1.06
1614384--1614431	24	2.0	24	88	8	71	64	0	2	33	1.05
1614921--1614954	16	2.1	17	88	5	52	70	2	0	26	1.01
1614969--1615015	9	5.0	9	78	19	51	53	0	0	46	1.00
1621317--1621633	155	2.0	155	100	0	634	34	21	21	22	1.97
1623491--1623533	12	3.6	12	80	0	50	30	4	41	23	1.74
1623493--1623542	21	2.4	21	82	0	55	32	6	44	18	1.74
1623624--1623688	33	2.0	32	84	3	85	16	27	30	24	1.97
1624044--1624077	9	3.8	9	84	0	50	17	14	35	32	1.91
1624789--1624829	17	2.4	18	80	19	52	60	0	2	36	1.10
1624890--1624946	22	2.6	21	88	8	78	57	1	1	38	1.19
1624890--1624947	21	2.5	22	83	13	73	58	1	1	37	1.18
1625016--1625053	15	2.6	15	87	4	51	65	2	0	31	1.06
1625408--1625443	15	2.5	15	90	4	56	27	2	0	69	1.02
1627148--1627184	19	1.9	19	94	0	65	59	0	0	40	0.97
1627710--1627750	19	2.3	17	87	8	55	36	2	2	58	1.24
1627721--1627802	23	3.5	23	71	15	69	45	0	0	54	0.99
1627730--1627845	48	2.4	48	81	7	126	43	0	0	56	0.99
1627814--1627850	19	1.9	20	88	5	58	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627825--1627885	7	9.3	7	72	16	51	31	0	0	68	0.89
1627827--1627894	15	4.5	15	84	10	77	33	0	0	66	0.92
1627827--1627887	32	2.0	30	90	6	95	32	0	0	67	0.91
1627840--1627887	12	3.8	12	82	15	60	33	0	0	66	0.92
1629222--1629264	21	2.0	23	86	9	63	67	2	0	30	1.03
1630449--1630618	61	2.8	62	72	16	156	45	0	0	53	1.09
1630522--1630620	21	4.7	21	67	21	55	41	0	0	58	0.98
1631492--1631523	3	10.7	3	100	0	64	31	0	0	68	0.90
1632144--1632178	2	17.5	2	100	0	70	51	0	0	48	1.00
1634149--1634205	4	14.2	4	84	0	69	47	0	5	47	1.24
1634149--1634205	6	9.5	6	86	0	69	47	0	5	47	1.24
1635267--1635292	2	13.0	2	100	0	52	50	0	0	50	1.00
1636145--1636170	2	13.0	2	100	0	52	50	0	0	50	1.00
1640958--1640988	2	16.0	2	93	6	55	48	0	0	51	1.00
1640961--1640986	13	2.0	13	100	0	52	46	0	0	53	1.00
1640959--1640989	15	2.1	15	100	0	62	45	0	0	54	0.99
1640952--1640988	19	1.9	19	94	0	65	48	0	0	51	1.00
1642242--1642276	2	18.0	2	88	5	54	51	2	0	45	1.16
1642834--1642883	23	2.2	23	96	0	91	30	14	4	52	1.59
1642842--1642891	23	2.2	23	81	0	55	42	14	4	40	1.64
1643561--1643599	2	19.5	2	100	0	78	51	0	0	48	1.00
1643762--1643786	10	2.5	10	100	0	50	40	12	20	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1646357--1646392	19	1.9	18	88	5	54	33	5	0	61	1.19
1647230--1647277	23	2.1	22	85	11	62	47	0	2	50	1.12
1648951--1649006	18	3.1	18	82	10	69	42	0	5	51	1.24
1648951--1649006	19	3.1	19	84	10	80	42	0	5	51	1.24
1649326--1649384	28	2.2	27	79	14	68	50	0	0	49	1.00
1650932--1650995	31	2.1	30	85	11	85	48	7	3	40	1.48
1651009--1651043	18	1.9	18	88	11	54	40	0	0	60	0.97
1651014--1651133	30	3.8	32	77	17	87	45	0	0	55	0.99
1651065--1651115	17	3.1	17	75	18	63	45	0	0	54	0.99
1651031--1651133	32	3.3	31	78	14	104	45	0	0	54	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21