genome.fa.s4319.2.7.7.80.10.50.1000.6.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: scaffold287
Parameters: 2 7 7 80 10 50 1000
Length:  1864789

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 730 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)
1414810--1414887	24	3.2	24	83	3	95	17	23	8	50	1.75
1427146--1427203	25	2.3	25	82	11	66	36	1	1	60	1.17
1432515--1432568	22	2.5	22	82	8	67	50	12	20	16	1.78
1436922--1436946	13	1.9	13	100	0	50	32	4	24	40	1.73
1440253--1440297	4	11.5	4	90	4	74	24	2	0	73	0.95
1440385--1440745	180	2.0	181	99	0	715	47	14	11	26	1.78
1447017--1447041	12	2.1	12	100	0	50	16	24	36	24	1.94
1452591--1452846	30	8.6	30	77	6	128	22	26	11	39	1.88
1452621--1452776	60	2.6	60	72	10	149	23	28	11	35	1.90
1452800--1452874	31	2.5	31	86	6	100	25	22	12	40	1.88
1454025--1454077	13	4.2	13	80	2	54	16	37	26	18	1.93
1456136--1456165	8	3.8	8	95	0	51	23	26	3	46	1.68
1465844--1465891	19	2.5	20	82	6	62	70	2	27	0	0.98
1474346--1474379	5	6.8	5	100	0	68	38	0	20	41	1.53
1476488--1476544	8	6.8	8	74	9	51	59	0	1	38	1.08
1476490--1476544	17	3.2	16	85	10	74	61	0	1	36	1.06
1479096--1479161	31	2.2	31	83	2	80	45	10	4	39	1.59
1480026--1480084	31	1.9	31	89	3	93	59	3	3	33	1.31
1485455--1485493	7	5.9	7	87	6	55	69	0	0	30	0.89
1485457--1485492	6	5.7	6	93	6	54	69	0	0	30	0.89
1485977--1486013	3	12.3	3	100	0	74	64	0	0	35	0.94
1493301--1493343	21	2.0	21	100	0	86	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)
1494231--1494286	28	2.0	29	89	3	87	26	0	55	17	1.43
1496840--1496905	33	2.0	33	96	0	123	56	0	18	25	1.42
1497299--1497396	3	32.3	3	81	6	58	37	5	1	56	1.28
1497628--1497653	13	2.0	13	100	0	52	53	15	7	23	1.67
1499770--1499925	38	4.1	38	100	0	312	44	21	12	21	1.85
1502985--1503054	35	2.0	35	94	0	122	21	18	27	32	1.97
1510795--1510971	25	7.0	25	83	3	219	35	21	16	26	1.94
1510795--1510971	78	2.3	75	88	2	255	35	21	16	26	1.94
1512909--1513239	164	2.0	165	92	2	551	39	9	12	38	1.76
1513256--1513290	4	9.0	4	87	6	54	25	0	0	74	0.82
1515347--1515461	57	2.0	57	86	6	162	37	3	20	39	1.69
1521567--1521602	18	2.0	18	89	10	56	50	5	8	36	1.56
1522562--1522592	16	2.0	16	93	6	55	48	19	6	25	1.72
1524628--1524742	20	5.8	19	77	9	113	35	18	33	13	1.89
1524611--1524742	40	3.3	40	88	4	203	33	17	33	15	1.92
1527897--1528554	333	2.0	326	96	2	1199	31	22	14	32	1.93
1537103--1537172	24	2.9	24	81	8	72	22	27	21	28	1.99
1541867--1542040	57	3.1	57	92	1	269	39	3	21	35	1.70
1550306--1550510	102	2.0	103	98	0	394	36	13	9	40	1.77
1556052--1556216	43	3.9	42	80	6	179	30	26	15	28	1.96
1556786--1556829	20	2.2	19	84	8	52	52	13	0	34	1.41
1561876--1561945	24	2.9	24	71	2	68	32	20	20	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565780--1565910	45	2.9	45	83	2	147	40	14	21	23	1.90
1568985--1569051	27	2.5	27	82	0	80	32	17	29	19	1.95
1573878--1573940	24	2.6	25	76	2	74	31	20	20	26	1.98
1587138--1587206	35	2.0	35	97	0	129	42	17	8	31	1.80
1597486--1597524	12	3.2	12	80	20	53	35	0	0	64	0.94
1600230--1600256	13	2.1	13	100	0	54	48	22	0	29	1.51
1608344--1608382	3	13.0	3	100	0	78	66	0	0	33	0.92
1616700--1616755	13	4.5	13	86	13	91	35	0	16	48	1.46
1616713--1616757	23	2.0	23	100	0	90	35	0	17	46	1.49
1619577--1619607	3	10.7	3	93	6	55	67	0	0	32	0.91
1619578--1619611	14	2.5	14	95	4	61	67	0	0	32	0.91
1621256--1621765	90	5.8	90	76	10	457	27	21	20	30	1.98
1621286--1621890	44	13.8	44	70	12	322	28	21	19	30	1.97
1621340--1621767	174	2.5	175	91	0	696	28	21	19	29	1.98
1621601--1621892	129	2.3	129	90	0	449	31	20	17	30	1.96
1621893--1622143	86	2.9	86	93	1	425	25	23	21	30	1.99
1622003--1622140	43	3.2	43	67	11	129	23	20	25	30	1.98
1623642--1623688	21	2.2	21	85	7	60	23	36	12	27	1.91
1623780--1623819	7	5.2	8	85	14	50	12	12	0	75	1.06
1623771--1623834	22	3.0	21	79	18	71	10	15	0	73	1.09
1623771--1623836	14	4.8	14	76	10	64	10	15	0	74	1.07
1623771--1623813	7	6.1	7	82	15	54	13	13	0	72	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633327--1633357	11	2.8	11	95	0	53	54	0	3	41	1.16
1635125--1635907	132	6.0	132	86	4	1128	23	24	20	31	1.98
1635160--1635471	44	7.1	44	61	5	121	25	22	20	31	1.98
1635125--1635863	125	5.8	125	85	6	978	23	23	20	31	1.98
1635125--1635907	257	3.0	257	91	2	1212	23	24	20	31	1.98
1653560--1653606	23	2.0	23	87	0	67	21	6	27	44	1.76
1662605--1662643	19	2.1	19	95	0	69	12	0	17	69	1.19
1668326--1668399	25	3.0	25	86	3	89	16	20	22	40	1.91
1670682--1670714	16	2.0	17	88	5	50	72	12	0	15	1.12
1670741--1671142	198	2.0	197	92	0	669	27	19	15	38	1.91
1672766--1672963	102	1.9	102	83	2	254	25	23	14	36	1.93
1676745--1676806	31	2.1	30	82	17	76	29	17	8	45	1.77
1676958--1677075	25	4.8	25	77	9	125	31	18	24	25	1.98
1676958--1677075	50	2.4	50	88	4	168	31	18	24	25	1.98
1696934--1696984	25	2.0	26	81	11	61	37	11	9	41	1.75
1700595--1700646	20	2.6	19	85	11	68	44	1	1	51	1.23
1700799--1700855	30	1.9	30	88	0	87	35	10	12	42	1.77
1711269--1711598	43	7.7	43	87	2	430	26	29	18	25	1.98
1711269--1711598	128	2.6	129	85	3	432	26	29	18	25	1.98
1713009--1713093	40	2.1	40	84	4	109	49	14	5	30	1.66
1713090--1713355	86	3.1	84	82	5	282	40	15	9	33	1.80
1713553--1713856	167	1.8	168	82	3	389	46	16	10	26	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1713938--1714065	62	2.1	62	100	0	256	51	10	10	27	1.69
1716350--1716395	19	2.4	19	89	7	67	15	2	4	78	1.01
1716750--1716809	7	8.6	7	83	12	79	40	43	0	16	1.48
1716750--1716837	7	12.6	7	80	9	54	36	43	0	20	1.52
1716852--1716899	15	3.3	15	85	5	62	31	37	0	31	1.58
1717326--1717419	41	2.3	41	81	0	107	32	27	15	23	1.95
1717342--1717477	41	3.3	40	81	5	139	28	30	19	22	1.98
1726441--1726509	17	4.2	16	70	15	61	36	1	4	57	1.27
1726446--1726470	12	2.1	12	100	0	50	40	0	8	52	1.31
1732886--1732945	29	2.1	29	87	0	84	36	3	6	53	1.44
1733278--1733336	20	2.9	21	89	2	84	49	3	1	45	1.28
1733332--1733367	3	12.0	3	100	0	72	33	33	0	33	1.58
1734344--1734420	28	2.6	30	87	6	122	48	3	0	48	1.20
1735104--1735164	20	3.3	19	73	11	56	65	1	4	27	1.22
1735447--1735527	37	2.2	37	86	0	108	40	14	9	34	1.80
1736407--1736435	14	2.1	14	100	0	58	13	0	41	44	1.44
1741623--1741972	172	2.0	172	95	0	628	37	21	13	27	1.90
1741896--1742218	160	2.0	161	99	0	639	39	21	12	26	1.89
1745771--1745836	32	2.1	32	100	0	132	30	21	21	27	1.98
1746753--1746790	20	1.9	20	88	0	58	23	10	21	44	1.83
1749322--1749366	20	2.2	20	88	0	63	28	15	11	44	1.81
1750262--1750381	45	2.6	45	88	1	159	32	33	5	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750268--1750381	22	5.1	22	72	4	102	32	33	6	28	1.82
1753816--1753866	26	1.9	27	88	4	77	70	1	15	11	1.25
1757164--1757209	20	2.3	20	88	0	65	26	15	13	45	1.82
1757853--1757970	45	2.6	45	83	1	137	33	32	4	29	1.77
1757900--1757970	22	3.2	21	73	11	61	35	30	4	29	1.77
1761570--1761616	24	2.0	24	82	0	58	10	34	21	34	1.88
1767571--1767685	57	2.0	58	86	1	160	32	17	13	37	1.88
1767854--1767884	2	15.5	2	100	0	62	0	48	0	51	1.00
1767888--1767917	2	15.0	2	100	0	60	50	0	0	50	1.00
1778853--1778908	20	2.8	20	77	0	67	19	25	21	33	1.97

Tables:   1   2   3   4   5   6   7