genome.fa.s29.2.7.7.80.10.50.1000.11.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   27   28   29   30   31   32   
          33   34   

This is table  11  of  34  ( 4030 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)
1623403--1623533	51	2.5	51	78	12	131	32	9	25	32	1.89
1625882--1625907	13	2.0	13	100	0	52	38	15	15	30	1.88
1625861--1625927	33	2.0	33	88	0	98	43	16	14	25	1.86
1625947--1626014	19	3.9	18	76	23	83	38	14	11	35	1.83
1625969--1625993	13	1.9	13	100	0	50	32	16	16	36	1.90
1625950--1626012	32	2.0	32	96	0	117	36	15	12	34	1.86
1630072--1630097	13	2.0	13	100	0	52	38	15	15	30	1.88
1630086--1630148	19	3.6	19	68	24	66	28	15	20	34	1.94
1630050--1630149	32	3.1	32	92	1	155	32	15	18	35	1.91
1632135--1632184	21	2.3	21	80	10	57	56	4	18	22	1.58
1636221--1636268	21	2.3	21	96	0	87	37	20	4	37	1.72
1637992--1638027	16	2.2	16	100	0	72	41	5	38	13	1.68
1638711--1638736	13	2.0	13	100	0	52	38	15	15	30	1.88
1638693--1638756	32	2.0	33	87	3	94	40	17	14	28	1.88
1643205--1643259	19	2.8	20	80	5	67	36	16	14	32	1.89
1643245--1643271	13	2.1	13	100	0	54	40	14	14	29	1.86
1643226--1643290	33	2.0	32	87	3	94	40	13	18	27	1.89
1645021--1645189	41	4.1	41	74	3	144	40	12	24	22	1.89
1646931--1646962	14	2.4	14	94	5	57	53	0	6	40	1.26
1648006--1648077	18	4.1	18	72	22	55	43	1	1	54	1.17
1648009--1648067	31	1.9	31	82	6	75	42	1	1	54	1.20
1648035--1648078	22	2.0	22	86	0	61	45	2	0	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648171--1648210	20	2.0	21	85	5	55	55	0	2	42	1.13
1652090--1652227	67	2.1	67	97	0	258	50	13	17	18	1.77
1658889--1658922	2	17.0	2	93	0	59	47	2	0	50	1.16
1662447--1662513	33	2.0	33	88	0	98	34	11	13	40	1.81
1662467--1662491	13	1.9	13	100	0	50	36	16	16	32	1.90
1662589--1662709	52	2.3	52	95	0	215	35	18	17	28	1.93
1671624--1671677	20	2.7	20	88	8	74	38	11	18	31	1.86
1671643--1671695	20	2.6	21	87	3	72	37	13	18	30	1.89
1671725--1671749	13	1.9	13	100	0	50	36	16	16	32	1.90
1682655--1682683	6	4.8	6	100	0	58	34	17	48	0	1.47
1683566--1683614	25	2.0	24	84	4	62	32	6	0	61	1.21
1683758--1683792	16	2.3	15	90	5	52	60	2	0	37	1.12
1684818--1684882	27	2.5	26	75	20	64	43	0	0	56	0.99
1684827--1684886	27	2.2	27	85	11	79	46	0	0	53	1.00
1684906--1684943	17	2.2	18	90	4	60	31	0	2	65	1.06
1685545--1685600	19	3.1	18	73	12	51	48	1	1	48	1.22
1692510--1692546	18	2.1	18	90	10	58	51	0	0	48	1.00
1695585--1695642	20	3.0	20	79	5	73	37	13	13	34	1.85
1695628--1695654	13	2.1	13	100	0	54	40	14	14	29	1.86
1695254--1695745	239	2.1	238	94	0	867	34	16	16	31	1.92
1696205--1696260	22	2.5	22	88	0	76	21	30	5	42	1.75
1698191--1698230	20	2.0	21	95	5	73	30	15	15	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701121--1701161	21	2.0	21	85	9	57	31	12	19	36	1.89
1702432--1702456	13	1.9	13	100	0	50	36	16	16	32	1.90
1702412--1702478	33	2.0	33	88	0	98	32	11	14	40	1.83
1702518--1702667	52	2.9	51	90	4	228	32	18	17	32	1.94
1711685--1711766	30	2.7	31	88	1	112	25	28	18	28	1.98
1711743--1711990	28	8.1	28	71	18	167	21	33	13	31	1.92
1711682--1712325	34	19.4	34	75	15	482	21	32	13	32	1.91
1711743--1712272	62	8.0	61	78	14	386	20	33	13	32	1.91
1711747--1711984	33	7.8	28	71	22	117	22	34	14	29	1.93
1711931--1712325	71	5.6	70	84	7	507	20	34	12	32	1.90
1711931--1712347	141	3.0	139	84	8	608	20	34	12	32	1.90
1711866--1712325	104	4.5	102	78	12	389	20	33	12	33	1.90
1712310--1712374	33	1.9	34	96	3	123	27	36	18	16	1.93
1712379--1712747	49	7.7	49	82	9	429	24	25	18	31	1.97
1712525--1712703	43	4.0	44	82	9	227	25	24	19	30	1.98
1712477--1712747	92	2.9	92	94	1	461	25	24	18	32	1.97
1712661--1713041	173	2.2	176	93	3	666	24	24	14	36	1.93
1713807--1713873	33	2.0	33	88	0	98	34	11	13	40	1.81
1713827--1713851	13	1.9	13	100	0	50	36	16	16	32	1.90
1713917--1713941	13	1.9	13	100	0	50	32	16	16	36	1.90
1713950--1714070	52	2.3	52	98	0	233	34	18	18	28	1.94
1714642--1714670	15	1.9	15	100	0	58	51	27	20	0	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722309--1722390	1	82.0	1	77	0	83	89	9	0	1	0.55
1722309--1722390	10	8.4	10	82	6	98	89	9	0	1	0.55
1722307--1722390	15	5.6	15	80	9	100	88	10	0	1	0.58
1722307--1722387	35	2.3	34	89	8	119	87	11	0	1	0.60
1722307--1722390	31	2.8	29	85	8	114	88	10	0	1	0.58
1723831--1724272	30	14.7	29	77	8	320	28	28	16	26	1.97
1723831--1724292	59	7.7	59	78	9	386	29	28	16	25	1.97
1724071--1724145	35	2.2	34	82	2	96	22	29	9	38	1.85
1724136--1724318	56	3.2	57	88	7	246	34	27	16	21	1.95
1724340--1724529	52	3.9	50	79	12	223	23	27	19	30	1.98
1724392--1724528	43	3.0	44	75	16	141	24	28	18	28	1.98
1724341--1724528	95	2.0	95	91	4	308	23	27	19	29	1.98
1725378--1725435	20	3.0	20	84	2	73	29	10	13	46	1.77
1725474--1725498	13	1.9	13	100	0	50	32	16	16	36	1.90
1725507--1725616	52	2.1	52	93	0	184	34	19	16	30	1.93
1727024--1727066	21	2.0	21	86	8	61	32	11	18	37	1.87
1728315--1728372	20	3.0	20	84	2	73	29	10	13	46	1.77
1728411--1728435	13	1.9	13	100	0	50	32	16	16	36	1.90
1728444--1728572	52	2.5	52	96	0	231	34	18	17	29	1.94
1738952--1739514	301	1.9	301	99	0	1108	34	19	21	23	1.97
1742628--1742698	1	71.0	1	72	0	52	85	12	0	1	0.65
1742626--1742695	5	14.2	5	79	8	81	84	14	0	1	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744138--1744579	30	14.7	29	76	8	293	28	28	16	26	1.97
1744138--1744599	59	7.7	59	76	9	359	29	28	16	26	1.97
1744378--1744452	35	2.2	34	82	2	96	22	29	9	38	1.85
1744443--1744625	28	6.3	29	86	5	214	34	27	15	21	1.94
1744443--1744625	87	2.1	88	85	8	241	34	27	15	21	1.94
1744646--1744783	43	3.0	44	78	16	170	23	29	18	28	1.98
1745632--1745709	20	4.0	20	89	1	113	28	10	12	48	1.74
1745748--1745772	13	1.9	13	100	0	50	32	16	16	36	1.90
1745781--1745890	52	2.1	52	96	0	202	34	18	17	30	1.94
1747300--1747340	21	2.0	21	85	9	57	31	9	19	39	1.84
1748590--1748647	20	3.0	20	84	2	73	29	10	13	46	1.77
1748685--1748834	52	2.9	51	89	4	228	33	18	17	31	1.94
1753546--1753590	21	2.1	21	83	0	54	17	22	2	57	1.50
1753561--1753604	21	2.1	21	87	8	63	20	18	2	59	1.49
1755133--1755223	32	2.7	31	76	18	85	32	23	15	28	1.95
1755707--1755745	10	3.9	10	82	0	51	38	7	28	25	1.83
1755777--1755801	13	1.9	13	100	0	50	36	16	16	32	1.90
1762384--1762429	21	2.2	20	81	11	58	32	19	4	43	1.71
1764779--1764804	13	2.0	13	100	0	52	38	15	15	30	1.88
1764761--1764824	32	2.0	33	87	3	94	40	17	14	28	1.88
1768903--1768948	21	2.1	22	84	4	58	43	2	0	54	1.12
1768920--1768953	16	2.1	16	88	5	50	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769612--1769657	22	2.0	23	91	4	76	52	6	2	39	1.40
1769616--1769665	22	2.2	22	85	3	64	52	8	4	36	1.50
1771185--1771223	16	2.4	16	91	4	60	33	2	0	64	1.08
1773425--1773459	16	2.3	15	90	5	52	0	20	5	74	1.02
1773430--1773479	23	2.2	23	85	7	66	0	22	2	76	0.89
1773772--1773818	24	1.9	24	91	4	76	51	2	6	40	1.39
1774042--1774075	13	2.5	14	90	4	52	50	0	0	50	1.00
1775530--1775571	22	1.9	22	90	0	66	69	2	2	26	1.13
1775748--1775781	17	2.0	17	100	0	68	41	0	5	52	1.25
1776670--1776703	2	17.0	2	100	0	68	50	0	0	50	1.00

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   27   28   29   30   31   32   
          33   34