genome.fa.s49.2.7.7.80.10.50.1000.9.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: Scaffold49
Parameters: 2 7 7 80 10 50 1000
Length:  1668912

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1071 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)
1474275--1474299	13	1.9	13	100	0	50	36	16	16	32	1.90
1474257--1474321	33	2.0	33	87	0	94	33	12	13	40	1.82
1474362--1474386	13	1.9	13	100	0	50	32	16	16	36	1.90
1476331--1476372	20	2.1	20	82	8	50	69	11	7	11	1.37
1523708--1523877	51	3.4	51	79	7	193	32	11	25	30	1.91
1527729--1527791	3	21.3	3	96	3	119	33	0	0	66	0.92
1530849--1530901	21	2.5	21	78	0	61	35	13	16	33	1.88
1532256--1532337	28	2.9	28	83	7	96	25	17	32	24	1.96
1532317--1532489	52	3.4	51	80	5	195	32	12	24	30	1.92
1532531--1532666	51	2.6	51	77	12	143	33	9	24	33	1.88
1535018--1535043	13	2.0	13	100	0	52	38	15	15	30	1.88
1534997--1535063	33	2.0	33	88	0	98	43	16	14	25	1.86
1535083--1535150	19	3.9	18	76	23	83	38	14	11	35	1.83
1535105--1535129	13	1.9	13	100	0	50	32	16	16	36	1.90
1535086--1535148	32	2.0	32	96	0	117	36	15	12	34	1.86
1535206--1535262	21	2.7	21	97	0	105	36	19	10	33	1.86
1535269--1535302	17	2.0	17	100	0	68	11	5	0	82	0.83
1542520--1542544	12	2.1	12	100	0	50	48	8	0	44	1.32
1550332--1550978	156	4.2	155	81	4	680	39	19	16	24	1.91
1550328--1551139	313	2.7	306	80	7	861	40	19	16	23	1.91
1550837--1551109	140	2.0	140	86	4	390	41	21	16	21	1.90
1551597--1551991	150	2.6	149	91	2	526	42	12	12	33	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1551899--1552146	129	1.9	130	85	4	340	41	10	11	36	1.76
1553067--1553135	31	2.2	31	79	5	77	7	17	1	73	1.12
1553766--1554336	166	3.5	166	79	11	641	51	7	11	29	1.65
1555446--1555490	22	2.0	22	82	8	54	60	0	0	40	0.97
1555727--1555757	16	1.9	16	93	0	53	58	3	0	38	1.15
1555875--1555908	10	3.4	10	91	0	59	50	2	0	47	1.16
1555869--1555918	20	2.5	19	75	9	55	46	4	0	50	1.20
1555875--1555954	29	2.7	29	77	9	72	50	1	0	48	1.08
1559458--1559591	70	1.9	70	93	3	234	20	14	8	57	1.62
1563331--1563371	5	8.4	5	94	5	75	19	0	0	80	0.71
1569247--1569304	26	2.2	26	81	9	73	44	10	0	44	1.38
1571378--1571418	21	2.0	21	85	9	57	39	9	9	41	1.71
1574009--1574051	23	2.0	21	86	9	59	67	2	2	27	1.15
1574584--1574617	3	11.3	3	100	0	68	32	0	0	67	0.91
1574971--1575007	19	2.0	18	89	5	56	32	0	0	67	0.91
1574969--1575006	15	2.6	15	83	4	51	34	0	0	65	0.93
1575700--1575770	30	2.4	31	73	7	74	57	1	4	36	1.27
1577213--1577264	20	2.6	20	96	0	95	42	13	15	28	1.85
1577471--1577510	19	2.1	19	86	9	55	25	5	2	67	1.23
1578483--1578551	20	3.2	21	74	11	77	56	0	0	43	0.99
1578722--1578795	29	2.5	30	82	2	87	43	0	0	56	0.99
1579888--1579940	27	2.0	27	85	7	74	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579897--1579951	14	3.4	17	72	25	55	40	0	0	60	0.97
1580067--1580106	2	20.5	2	94	5	73	50	0	0	50	1.00
1580330--1580371	11	3.7	12	81	9	52	52	0	0	47	1.00
1580331--1580381	20	2.4	21	87	9	68	50	0	0	49	1.00
1580456--1580503	17	2.9	16	74	20	53	43	0	4	52	1.20
1580609--1580650	17	2.5	17	88	0	66	73	0	0	26	0.83
1580682--1580710	13	2.1	14	93	6	51	48	0	0	51	1.00
1580655--1580713	29	2.1	27	81	12	66	44	0	0	55	0.99
1580694--1580769	19	3.9	19	70	11	55	43	0	0	56	0.99
1583590--1583629	20	2.0	21	85	5	55	17	17	12	52	1.74
1585075--1585100	1	26.0	1	100	0	52	0	0	100	0	0.00
1588194--1588218	6	4.2	6	100	0	50	32	0	68	0	0.90
1591196--1591242	20	2.4	20	86	10	62	31	10	21	36	1.88
1594312--1594439	52	2.5	51	89	1	193	28	14	18	39	1.90
1594448--1594472	13	1.9	13	100	0	50	36	16	16	32	1.90
1594525--1594595	19	3.7	19	88	0	106	39	14	12	33	1.83
1594753--1594789	16	2.2	17	95	4	67	54	5	10	29	1.57
1594920--1594972	20	2.7	20	82	5	63	33	11	18	35	1.87
1604463--1604511	13	3.7	13	81	8	55	79	0	2	18	0.83
1604642--1604674	13	2.5	13	95	0	57	30	15	21	33	1.94
1604691--1604731	21	2.0	21	100	0	82	43	9	19	26	1.82
1607083--1607216	52	2.6	51	78	3	160	29	26	11	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1607232--1607435	79	2.6	78	76	8	214	28	26	10	34	1.90
1613532--1613915	63	6.2	62	88	3	476	25	26	18	28	1.98
1613532--1613921	124	3.2	124	89	2	556	25	26	18	28	1.98
1613529--1613921	60	6.4	60	86	4	480	25	27	18	28	1.98
1613934--1614252	55	5.6	59	81	9	317	24	26	21	27	1.99
1613935--1614241	116	2.7	115	79	7	335	25	27	20	26	1.99
1614055--1614455	210	1.9	211	85	2	556	25	27	20	25	1.99
1614269--1614432	55	2.9	55	81	11	179	27	31	20	21	1.98
1614439--1614606	42	3.9	43	75	16	159	19	26	13	39	1.89
1615492--1615533	21	2.0	21	100	0	84	42	9	19	28	1.82
1615520--1615545	13	2.0	13	100	0	52	30	15	15	38	1.88
1616950--1617134	51	3.6	50	77	8	192	30	24	9	34	1.88
1616961--1617134	52	3.4	51	80	12	162	31	25	10	33	1.89
1617122--1617321	79	2.5	78	77	7	199	28	25	12	34	1.92
1625692--1625729	20	1.9	20	100	0	76	39	10	18	31	1.85
1627887--1627932	16	2.8	17	77	6	51	50	4	2	43	1.34
1628733--1628772	21	2.0	21	90	5	64	62	0	0	37	0.95
1629573--1629627	2	27.5	2	100	0	110	0	49	0	50	1.00
1635832--1635867	2	18.0	2	100	0	72	0	50	0	50	1.00
1642599--1642640	3	14.0	3	89	0	66	33	4	0	61	1.17
1643546--1643576	3	10.0	3	93	6	53	64	3	32	0	1.09
1643754--1643780	3	9.0	3	100	0	54	33	33	0	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645035--1645076	2	21.5	2	90	4	59	42	0	4	52	1.22
1646923--1646948	13	2.0	13	100	0	52	38	7	0	53	1.30
1648612--1648670	23	2.6	23	78	5	66	27	8	1	62	1.33
1648711--1648794	37	2.2	38	83	6	109	42	4	0	52	1.22
1649646--1649685	14	2.9	14	78	14	55	60	0	0	40	0.97
1649868--1649906	20	2.0	20	85	10	53	25	2	0	71	0.98
1652507--1652541	2	17.5	2	100	0	70	51	0	48	0	1.00
1661629--1661701	1	73.0	1	76	0	65	87	5	6	0	0.66
1661629--1661701	15	4.6	15	82	15	85	87	5	6	0	0.66
1661628--1661693	28	2.4	28	87	7	91	86	7	6	0	0.71
1662665--1663454	55	14.1	54	85	8	924	27	28	20	23	1.99
1662719--1662804	27	3.1	27	62	15	68	27	30	18	23	1.98
1662665--1663474	164	4.8	161	82	9	892	27	28	20	23	1.99
1662666--1663451	109	7.0	109	86	7	929	27	28	20	22	1.99
1663318--1663400	27	3.0	28	64	22	75	28	31	20	19	1.97
1664243--1664310	19	3.9	19	78	21	85	35	11	14	38	1.83
1664264--1664288	13	1.9	13	100	0	50	36	16	16	32	1.90
1664245--1664307	32	2.0	32	96	0	117	34	12	15	36	1.86
1664350--1664375	13	2.0	13	100	0	52	30	15	15	38	1.88
1664330--1664392	33	1.9	33	86	0	90	25	14	17	42	1.87
1666729--1667070	52	6.6	50	69	17	171	30	26	11	31	1.92
1666849--1666916	27	2.5	27	87	2	91	25	32	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666735--1667126	211	1.9	210	86	6	569	28	27	13	30	1.94

Tables:   1   2   3   4   5   6   7   8   9

The End!