genome.fa.s414.2.7.7.80.10.50.1000.11.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: Scaffold414
Parameters: 2 7 7 80 10 50 1000
Length:  2018024

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

This is table  11  of  13  ( 1553 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)
1630538--1630634	35	2.9	34	83	7	117	19	29	11	39	1.87
1630552--1630674	35	3.7	34	78	14	98	23	29	14	32	1.94
1630705--1631041	49	6.9	49	78	6	290	25	24	17	31	1.97
1630777--1630844	21	3.2	21	67	19	50	29	25	14	30	1.95
1630710--1630951	92	2.6	94	83	4	281	25	24	17	32	1.97
1630715--1631041	92	3.3	98	81	4	270	25	25	17	31	1.97
1631785--1631913	19	7.8	18	71	28	117	32	12	17	37	1.87
1631787--1631921	32	4.2	32	97	0	252	32	12	18	36	1.88
1631806--1631894	13	5.9	13	70	27	61	33	13	17	34	1.89
1631999--1632127	52	2.5	52	89	0	195	36	17	17	28	1.93
1640320--1640375	1	56.0	1	78	0	58	89	8	1	0	0.56
1640320--1640375	10	5.6	10	85	10	71	89	8	1	0	0.56
1640321--1640374	28	2.0	27	92	3	90	88	9	1	0	0.58
1640322--1640375	9	5.9	9	85	12	74	88	9	1	0	0.58
1641347--1642401	55	18.6	55	85	7	1294	27	29	20	22	1.99
1641343--1642401	227	4.7	227	92	1	1716	27	29	20	23	1.99
1644604--1644642	2	19.5	2	94	0	69	51	2	0	46	1.14
1645022--1645079	11	5.2	11	74	12	55	1	17	0	81	0.78
1645023--1645078	17	3.3	17	79	0	67	1	17	0	80	0.80
1646306--1646491	32	5.8	32	89	0	266	18	17	32	30	1.95
1646474--1646670	27	7.2	27	90	3	306	28	14	34	21	1.93
1646474--1646670	55	3.6	54	91	4	315	28	14	34	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648970--1649024	22	2.5	22	100	0	110	61	9	10	18	1.54
1649934--1650008	20	3.8	20	80	3	80	40	12	13	34	1.81
1649931--1650008	40	2.0	39	87	2	111	39	12	12	34	1.82
1650536--1651073	32	16.8	32	95	0	871	15	18	35	30	1.92
1651056--1651876	27	30.0	27	91	2	1311	27	14	35	23	1.93
1651056--1651876	110	7.5	108	93	2	1311	27	14	35	23	1.93
1654295--1655461	27	42.8	27	89	2	1805	28	14	34	23	1.94
1654295--1655461	136	8.6	135	92	1	1805	28	14	34	23	1.94
1654295--1655461	163	7.1	162	92	1	1807	28	14	34	23	1.94
1660720--1660852	28	4.9	27	90	3	212	30	13	32	23	1.93
1660720--1660852	55	2.4	54	90	3	212	30	13	32	23	1.93
1662867--1662917	23	2.1	25	82	7	61	50	5	1	41	1.37
1663449--1663478	10	3.0	10	95	0	51	0	13	0	86	0.57
1663452--1663505	24	2.5	22	80	16	67	1	20	0	77	0.86
1664391--1664740	61	5.8	61	80	6	403	25	26	21	25	2.00
1664391--1664737	177	2.0	177	91	1	570	25	26	21	25	2.00
1665466--1665509	3	14.7	3	95	0	79	65	2	0	31	1.05
1665613--1665667	21	2.7	21	80	5	69	34	12	14	38	1.84
1665720--1665745	13	2.0	13	100	0	52	30	15	15	38	1.88
1668068--1668466	52	7.6	51	70	11	254	29	25	12	33	1.92
1668243--1668463	51	4.3	51	77	8	205	29	23	11	34	1.91
1668480--1668656	79	2.2	79	80	3	194	24	27	15	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1672733--1672982	79	3.2	78	83	6	297	32	13	24	30	1.93
1672846--1673111	130	2.0	130	89	1	408	34	12	23	30	1.91
1672967--1673191	79	2.8	79	80	5	274	34	12	24	29	1.91
1672766--1673333	209	2.7	208	80	6	610	34	11	23	29	1.91
1673048--1673323	130	2.1	130	80	5	326	34	11	23	30	1.90
1673127--1673243	51	2.3	51	83	5	157	33	9	24	32	1.87
1673178--1673336	79	2.0	79	87	2	230	32	11	25	30	1.92
1673291--1673383	48	1.9	48	88	0	141	37	13	20	27	1.91
1673218--1673460	127	1.9	127	85	3	337	36	13	22	27	1.92
1675794--1675844	20	2.5	20	93	0	93	45	13	13	27	1.82
1679393--1679508	45	2.5	45	80	5	124	31	21	27	18	1.97
1679530--1680004	32	14.8	32	89	0	709	18	19	33	29	1.95
1679987--1681760	82	21.7	81	90	2	2722	28	14	33	23	1.93
1679987--1681760	27	65.0	27	90	2	2722	28	14	33	23	1.93
1689646--1689704	26	2.3	26	100	0	118	18	42	32	6	1.77
1690744--1691368	59	10.4	60	84	6	689	26	18	27	27	1.98
1690785--1691374	120	4.9	120	84	6	725	27	18	27	26	1.98
1690752--1691368	179	3.4	179	85	2	760	26	18	27	27	1.98
1693677--1693710	2	17.0	2	100	0	68	50	0	0	50	1.00
1694195--1694234	21	2.0	20	90	5	62	35	2	5	57	1.34
1695437--1695500	2	32.0	2	100	0	128	50	0	0	50	1.00
1696039--1696091	21	2.6	21	80	11	58	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1698018--1698044	2	13.5	2	100	0	54	48	0	0	51	1.00
1699506--1699534	1	29.0	1	100	0	58	0	0	0	100	0.00
1704174--1704212	18	2.2	18	90	9	62	51	5	7	35	1.53
1705588--1705620	16	2.0	17	88	5	50	9	33	0	57	1.30
1706821--1706933	58	1.9	58	87	3	165	25	15	15	43	1.86
1707424--1707453	15	2.0	15	93	0	51	30	0	0	70	0.88
1711726--1711874	52	2.9	51	88	4	226	31	17	18	32	1.94
1711863--1711887	13	1.9	13	100	0	50	36	16	16	32	1.90
1711930--1711990	18	3.7	18	75	20	78	45	13	13	27	1.80
1711948--1712003	13	3.9	13	75	20	58	39	14	14	32	1.86
1711928--1712004	31	2.5	31	100	0	154	44	12	12	29	1.81
1712536--1712586	18	2.5	20	78	21	61	58	3	0	37	1.16
1713379--1713420	16	2.4	17	84	15	59	61	0	0	38	0.96
1713621--1713674	22	2.4	21	81	12	54	72	1	20	5	1.14
1714340--1714380	21	2.0	21	90	4	66	19	9	12	58	1.61
1722204--1722421	34	6.4	34	86	2	269	25	7	25	40	1.82
1722204--1722421	102	2.1	101	89	3	330	25	7	25	40	1.82
1726831--1727049	34	6.5	34	86	2	289	25	7	26	40	1.82
1726831--1727049	102	2.2	101	90	1	348	25	7	26	40	1.82
1731464--1731501	18	2.0	20	85	10	53	52	0	0	47	1.00
1731828--1731872	23	2.0	23	86	0	63	28	0	2	68	1.01
1731867--1731931	18	3.9	17	75	16	50	38	0	1	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1731988--1732132	5	28.4	5	65	21	61	37	3	0	59	1.15
1735387--1735441	14	3.8	15	73	21	55	70	1	0	27	0.97
1735628--1735674	23	2.1	22	88	4	67	63	0	0	36	0.94
1738494--1738565	29	2.4	30	76	15	78	45	0	0	54	0.99
1738483--1738620	35	4.1	34	74	16	108	43	2	0	54	1.12
1741218--1741255	2	19.0	2	94	0	67	47	2	0	50	1.15
1741534--1741846	161	1.9	166	88	3	474	30	15	11	42	1.82
1742646--1742697	21	2.5	22	73	20	56	40	1	19	38	1.63
1742867--1743002	72	1.9	72	80	8	161	52	0	5	40	1.31
1742945--1743008	33	1.9	34	87	9	96	53	0	1	45	1.10
1742996--1743026	6	5.2	6	92	0	53	32	3	0	64	1.09
1743046--1743101	26	2.2	25	81	12	60	58	1	0	39	1.08
1749794--1749929	68	2.0	67	88	1	200	52	13	14	19	1.75
1750140--1750205	27	2.4	27	87	7	89	48	19	7	24	1.75
1752089--1752134	21	2.1	22	84	4	58	19	30	19	30	1.97
1754587--1754632	20	2.3	21	81	11	60	32	4	52	10	1.56
1754695--1754767	35	2.2	32	81	13	85	54	21	5	17	1.63
1756864--1757087	58	3.9	58	81	10	217	44	15	10	29	1.80
1757092--1757264	57	3.0	56	76	11	161	53	12	10	23	1.69
1762710--1762745	19	1.9	18	88	5	54	25	0	0	75	0.81
1768385--1768440	19	2.8	21	78	5	71	37	14	14	33	1.86
1771212--1771255	1	44.0	1	86	0	61	0	0	6	93	0.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771213--1771252	10	3.9	10	96	3	71	0	0	7	92	0.38
1771212--1771253	11	3.9	11	93	6	77	0	0	7	92	0.37
1771213--1771253	21	2.0	21	100	0	82	0	0	7	92	0.38
1772504--1772542	19	2.1	19	100	0	78	20	28	10	41	1.85
1772579--1772660	21	4.1	20	85	6	112	37	17	12	32	1.86
1772579--1772660	41	2.0	40	88	6	121	37	17	12	32	1.86
1772696--1772763	19	3.9	19	78	21	85	35	11	14	38	1.83
1772698--1772760	32	2.0	32	96	0	117	34	12	15	36	1.86
1772717--1772741	13	1.9	13	100	0	50	36	16	16	32	1.90
1772803--1772828	13	2.0	13	100	0	52	30	15	15	38	1.88

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