genome.fa.s46.2.7.7.80.10.50.1000.10.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: Scaffold46
Parameters: 2 7 7 80 10 50 1000
Length:  2524624

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  10  of  15  ( 1780 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)
1533994--1534152	31	5.2	31	82	6	150	21	18	28	31	1.97
1533986--1534103	62	1.9	62	87	1	173	19	18	29	32	1.96
1533999--1534181	28	6.2	28	81	7	120	21	17	30	30	1.96
1534245--1534305	29	2.1	28	84	9	77	19	18	32	29	1.95
1537783--1537911	52	2.5	52	98	0	249	27	18	18	34	1.95
1537985--1538082	19	5.8	18	69	28	81	37	17	11	33	1.85
1537983--1538080	32	3.0	32	95	1	169	36	17	11	34	1.85
1538004--1538060	13	3.9	13	74	24	51	35	17	12	35	1.87
1538485--1538539	28	2.0	28	82	7	67	20	16	18	45	1.86
1539420--1539474	22	2.5	22	93	3	92	23	5	10	60	1.51
1547441--1547920	49	10.4	49	77	13	240	28	20	26	24	1.99
1547441--1547664	101	2.2	101	80	3	245	32	19	25	22	1.98
1547630--1548050	39	9.9	39	76	16	349	25	20	26	27	1.99
1547839--1548089	39	5.6	46	76	16	242	27	20	26	25	1.99
1547753--1548093	87	3.9	87	89	2	508	26	20	26	26	1.99
1548122--1548216	29	3.3	28	80	14	106	16	13	32	36	1.88
1548196--1548472	34	8.5	34	76	13	219	31	11	35	20	1.89
1548230--1548415	60	3.0	59	85	7	237	31	12	34	20	1.91
1548354--1548508	34	4.5	33	77	10	150	31	10	37	20	1.86
1548190--1548513	33	9.8	32	76	13	227	32	11	35	20	1.89
1548488--1548709	31	7.2	31	85	4	281	31	15	30	21	1.95
1548488--1548709	92	2.4	92	87	4	306	31	15	30	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549355--1549413	31	2.0	29	83	6	73	30	6	23	38	1.81
1558351--1558404	13	4.6	13	72	25	57	37	16	12	33	1.87
1558351--1558420	33	2.1	33	89	5	106	37	18	12	31	1.89
1558450--1558502	19	2.8	20	80	8	65	35	15	18	30	1.92
1558488--1558514	13	2.1	13	100	0	54	40	14	14	29	1.86
1559971--1560018	22	2.2	22	84	0	60	68	0	18	12	1.20
1561546--1561598	25	2.1	25	82	6	63	43	1	5	49	1.37
1561594--1561643	26	1.9	26	84	8	66	44	10	0	46	1.37
1565767--1565920	20	7.7	20	70	15	77	32	12	12	41	1.82
1565845--1565920	21	3.7	21	74	13	77	30	11	13	44	1.79
1566029--1566343	62	5.1	61	83	6	375	26	23	18	32	1.97
1566036--1566343	123	2.5	125	86	5	408	26	22	17	33	1.96
1569364--1569627	80	3.3	79	78	8	250	30	23	9	36	1.87
1569634--1569703	28	2.5	28	81	4	70	25	21	18	34	1.96
1569555--1569788	108	2.2	108	78	2	247	26	21	14	37	1.92
1574669--1574693	2	12.5	2	100	0	50	52	0	0	48	1.00
1575052--1575126	24	3.3	24	65	12	59	46	2	5	45	1.40
1581462--1581510	23	2.2	22	85	3	62	69	10	0	20	1.17
1582088--1582141	20	2.7	20	97	0	99	31	12	11	44	1.78
1582006--1582138	71	1.9	71	87	0	194	28	12	12	45	1.79
1585614--1585671	28	2.1	28	83	0	71	20	15	37	25	1.92
1585677--1585787	52	2.2	51	83	6	136	37	9	22	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585720--1586412	80	8.7	80	74	10	524	32	11	27	28	1.91
1585936--1586056	28	4.5	27	69	15	99	25	16	29	28	1.97
1586012--1586412	159	2.5	159	83	6	476	32	11	27	28	1.91
1588833--1588889	20	2.8	20	75	2	60	36	10	14	38	1.80
1588874--1589041	50	3.3	49	70	15	144	42	11	13	32	1.80
1588862--1589049	102	1.8	102	94	0	331	42	12	13	31	1.81
1589123--1589172	20	2.5	20	80	0	55	38	16	8	38	1.78
1590764--1590812	19	2.5	19	80	9	55	42	16	12	28	1.84
1593718--1593757	21	1.9	21	85	10	55	17	15	12	55	1.70
1593775--1593820	20	2.2	21	84	3	58	26	15	0	58	1.37
1614345--1614399	12	4.6	12	82	8	67	83	16	0	0	0.64
1614343--1614399	8	7.0	8	84	11	71	82	17	0	0	0.67
1614353--1614395	4	10.8	4	84	0	59	79	20	0	0	0.74
1615801--1615857	20	2.8	20	89	0	87	26	17	14	42	1.87
1615901--1615930	13	2.3	13	94	0	51	33	16	10	40	1.82
1615819--1615930	33	3.5	32	72	11	106	28	18	14	38	1.90
1616320--1616386	33	2.0	33	88	0	98	32	11	14	40	1.83
1616340--1616364	13	1.9	13	100	0	50	36	16	16	32	1.90
1616427--1616451	13	1.9	13	100	0	50	32	16	16	36	1.90
1616460--1616588	52	2.5	52	92	0	213	35	18	16	29	1.93
1623746--1623780	11	3.1	11	88	8	52	88	5	5	0	0.63
1624714--1624858	33	4.5	32	90	5	213	28	36	16	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624851--1625794	49	19.9	49	85	8	1165	25	25	17	30	1.97
1624943--1625785	92	9.0	92	85	10	1041	25	25	17	30	1.98
1625215--1625285	21	3.2	24	62	25	64	29	23	19	26	1.98
1625242--1625309	21	3.2	21	62	25	52	27	25	17	29	1.97
1625695--1625832	52	2.6	52	84	3	177	24	24	15	34	1.95
1626645--1626711	33	2.0	33	88	0	98	32	11	14	40	1.83
1626665--1626689	13	1.9	13	100	0	50	36	16	16	32	1.90
1626752--1626776	13	1.9	13	100	0	50	32	16	16	36	1.90
1626785--1626913	52	2.5	52	89	5	206	35	18	16	29	1.93
1627706--1627734	14	2.1	14	100	0	58	27	6	20	44	1.77
1632361--1632437	28	2.8	26	90	7	109	22	33	20	23	1.97
1632315--1632592	108	2.6	108	81	3	312	27	25	14	32	1.95
1632529--1632643	51	2.2	52	87	4	171	32	24	10	33	1.89
1632578--1632796	79	2.7	79	79	4	253	28	27	13	30	1.94
1637970--1638000	8	3.9	8	91	0	53	87	12	0	0	0.55
1638989--1639197	61	3.4	61	88	0	303	25	27	20	26	1.99
1639178--1639474	43	6.8	43	84	10	361	19	28	14	37	1.91
1639475--1639595	62	2.0	62	91	3	199	24	25	19	30	1.98
1639674--1639813	61	2.3	61	82	4	167	27	26	20	25	1.99
1639481--1640022	216	2.5	216	85	4	761	25	27	19	28	1.99
1639853--1640090	62	3.9	61	88	4	345	26	28	18	26	1.98
1639853--1640090	123	1.9	122	88	2	361	26	28	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639888--1640775	218	3.9	226	78	12	756	25	27	19	27	1.99
1640112--1640773	55	11.3	55	76	13	328	26	26	20	26	1.99
1640131--1640900	61	13.0	62	80	8	734	26	26	19	27	1.99
1640903--1641095	45	4.5	43	76	14	159	18	27	11	41	1.86
1640996--1641094	40	2.4	41	85	6	121	18	27	11	43	1.83
1641688--1641816	20	6.8	19	75	16	90	29	19	12	38	1.88
1641706--1641775	33	2.1	33	89	0	104	28	20	12	38	1.89
1641726--1641756	13	2.4	13	94	0	53	29	19	16	35	1.93
1645285--1645600	29	11.1	29	85	5	360	32	26	17	23	1.97
1645600--1645871	48	6.0	48	69	17	204	25	26	18	29	1.98
1645666--1645818	39	3.7	38	75	16	144	26	27	20	25	1.99
1645606--1645863	87	3.0	87	91	0	408	25	25	19	28	1.99
1645899--1646034	52	2.6	51	82	9	143	27	24	14	33	1.94
1653034--1653067	3	11.3	3	93	0	59	29	0	0	70	0.87
1658970--1659044	20	3.8	19	83	3	69	36	16	13	34	1.87
1658993--1659064	20	3.7	18	82	12	81	40	15	16	27	1.89
1659132--1659311	89	2.0	89	96	0	333	40	11	8	38	1.73
1660037--1660097	28	2.2	28	84	0	77	26	18	27	27	1.98
1661576--1661615	13	3.1	13	85	0	62	37	12	15	35	1.85
1667851--1667923	19	3.8	20	80	7	69	36	16	16	30	1.91
1668188--1668413	47	4.6	48	78	12	210	34	16	25	23	1.95
1668218--1668447	100	2.4	95	82	7	241	33	16	25	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1668462--1668549	31	2.8	31	81	3	115	20	19	29	30	1.97
1725125--1725196	28	2.6	28	86	0	90	25	19	33	22	1.97
1725185--1725574	52	7.4	53	72	17	190	31	12	25	30	1.92
1725337--1725412	27	2.8	28	89	2	109	21	21	34	23	1.97
1725120--1725540	212	2.0	213	85	6	577	30	13	26	29	1.94
1725400--1725581	55	3.4	54	85	7	255	33	10	23	32	1.89
1727943--1727968	13	2.0	13	100	0	52	38	15	15	30	1.88
1727922--1727988	33	2.0	33	88	0	98	43	16	14	25	1.86
1728008--1728075	19	3.9	18	76	23	83	38	14	11	35	1.83
1728030--1728054	13	1.9	13	100	0	50	32	16	16	36	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15