genome.fa.s324.2.7.7.80.10.50.1000.11.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: Scaffold324
Parameters: 2 7 7 80 10 50 1000
Length:  2336777

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  11  of  16  ( 1878 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)
1523222--1523305	24	3.5	23	74	16	73	55	1	0	42	1.07
1523257--1523313	26	2.2	26	87	9	80	45	1	1	50	1.22
1523369--1523403	2	17.5	2	87	0	52	48	0	2	48	1.16
1525679--1525756	39	2.0	40	84	2	104	38	14	10	37	1.80
1526737--1526779	8	5.7	7	81	13	50	58	0	2	39	1.11
1526732--1526780	23	2.1	23	92	0	80	59	0	2	38	1.09
1526793--1526842	19	2.4	21	77	16	59	52	0	0	48	1.00
1527130--1527180	27	1.9	26	84	11	68	66	1	0	31	1.03
1527635--1527698	26	2.6	26	87	7	89	43	1	3	51	1.26
1527749--1527785	18	2.0	19	94	5	67	45	0	0	54	1.00
1527780--1527818	6	6.7	6	91	2	62	82	0	0	17	0.68
1528615--1528703	42	2.2	41	92	6	146	22	12	41	23	1.87
1528561--1528762	102	2.0	100	90	5	316	23	12	41	22	1.88
1528654--1528972	63	5.1	63	91	1	462	24	12	41	21	1.88
1529083--1529208	36	3.3	36	66	26	89	19	10	42	26	1.83
1529053--1529225	78	2.2	78	92	0	283	20	12	41	24	1.88
1529014--1529357	174	2.0	177	86	1	487	20	11	42	25	1.85
1529212--1529399	42	4.6	41	77	16	194	18	10	44	26	1.82
1529212--1529429	120	1.8	120	88	0	337	19	11	42	27	1.84
1529398--1529560	33	4.7	33	77	12	155	22	15	38	24	1.92
1529452--1529573	42	3.1	41	74	20	143	18	15	40	24	1.90
1529412--1529573	75	2.2	75	96	0	297	20	14	40	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1529566--1529741	63	2.8	63	87	0	226	18	6	45	28	1.75
1529623--1529756	63	2.1	63	87	0	187	22	8	44	24	1.81
1530516--1530552	18	2.1	18	89	0	56	45	2	0	51	1.15
1530977--1531020	18	2.5	18	82	10	56	61	0	0	38	0.96
1531011--1531060	15	3.3	15	78	8	57	50	0	0	50	1.00
1531309--1531357	26	2.0	24	88	8	71	57	0	2	40	1.10
1531316--1531373	26	2.2	25	79	8	62	63	0	1	34	1.04
1531466--1531588	24	5.0	26	69	21	79	41	0	0	57	1.04
1531519--1531585	18	3.4	18	69	25	55	44	0	0	55	0.99
1531492--1531597	42	2.5	41	81	7	124	39	0	0	59	1.04
1534350--1534384	8	4.4	8	88	0	52	31	0	0	68	0.90
1534350--1534384	16	2.2	16	100	0	70	31	0	0	68	0.90
1535899--1536521	312	2.0	312	99	0	1237	41	18	11	28	1.86
1539009--1539056	23	2.0	26	88	12	75	43	0	4	52	1.20
1542180--1542209	10	3.1	10	95	4	53	50	0	0	50	1.00
1544038--1544064	14	1.9	14	100	0	54	37	11	22	29	1.89
1550630--1550669	17	2.3	18	91	4	64	47	0	2	50	1.14
1553139--1553169	12	2.6	12	100	0	62	61	0	6	32	1.21
1555298--1555324	4	6.8	4	100	0	54	77	0	0	22	0.76
1556188--1556217	15	1.9	16	93	6	53	33	0	3	63	1.11
1556206--1556252	16	2.9	16	96	0	85	29	0	6	63	1.19
1556632--1556678	16	2.8	17	83	6	60	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556913--1556958	3	15.3	3	100	0	92	67	0	0	32	0.91
1557056--1557132	22	3.6	21	71	15	59	40	0	1	58	1.06
1557103--1557171	30	2.2	30	82	10	77	44	1	1	52	1.19
1557362--1557596	94	2.5	93	84	4	303	52	10	0	37	1.39
1557333--1557596	93	2.8	92	80	6	318	51	10	0	37	1.40
1560939--1560982	22	2.0	22	86	0	61	56	0	2	40	1.11
1561916--1561981	23	3.0	20	79	16	69	56	0	0	43	0.99
1561922--1561977	17	3.1	17	76	14	58	53	0	0	46	1.00
1562070--1562100	2	15.5	2	100	0	62	51	0	0	48	1.00
1563579--1563649	17	4.1	17	70	3	70	63	0	0	36	0.95
1563566--1563619	17	2.8	20	70	16	60	59	0	0	40	0.98
1563566--1563648	35	2.3	37	83	6	98	61	0	0	38	0.96
1564029--1564085	25	2.3	24	77	11	62	57	7	3	31	1.42
1564831--1564873	20	2.2	19	87	4	59	67	0	0	32	0.91
1564812--1564875	23	2.7	25	77	20	66	67	0	0	32	0.91
1565864--1565897	18	2.0	18	88	11	54	61	0	0	38	0.96
1565990--1566048	23	2.7	22	77	15	68	40	1	0	57	1.09
1567052--1567077	4	6.5	4	100	0	52	26	0	0	73	0.84
1567631--1567676	2	25.0	2	79	16	55	43	0	2	54	1.12
1568458--1568530	33	2.2	33	85	0	101	38	1	2	57	1.22
1571844--1571879	17	2.1	17	94	0	63	47	5	2	44	1.41
1573639--1573673	18	1.9	18	94	0	61	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573613--1573671	23	2.6	23	76	10	66	55	1	3	38	1.26
1573711--1573756	18	2.6	18	79	3	58	34	2	0	63	1.07
1573739--1573777	13	3.0	13	82	10	53	38	0	2	58	1.12
1574182--1574216	18	1.9	18	88	11	54	42	0	2	54	1.15
1574267--1574315	10	5.1	10	80	4	57	57	0	2	40	1.10
1574330--1574390	15	3.7	15	75	18	50	37	1	3	57	1.25
1574677--1574709	15	2.1	17	88	11	52	51	9	0	39	1.34
1576688--1576731	14	3.1	14	87	9	63	45	0	0	54	0.99
1576686--1576744	28	2.1	28	84	6	75	52	0	0	47	1.00
1576688--1576731	13	3.1	15	84	9	58	45	0	0	54	0.99
1577898--1577940	16	2.7	16	85	0	59	51	0	2	46	1.13
1578174--1578218	20	2.4	18	85	7	63	48	0	0	51	1.00
1578174--1578219	19	2.4	18	82	7	56	47	0	0	52	1.00
1578235--1578300	18	3.4	19	80	12	71	60	0	0	39	0.97
1578268--1578304	19	2.0	18	89	5	56	64	0	0	35	0.94
1578678--1578723	23	2.0	23	87	8	67	45	2	0	52	1.13
1578999--1579041	16	2.7	16	79	13	52	27	0	2	69	1.00
1581597--1581630	2	17.5	2	93	6	61	50	0	0	50	1.00
1582674--1582732	28	2.2	28	84	6	77	45	0	1	52	1.10
1582884--1582911	2	14.0	2	100	0	56	50	0	0	50	1.00
1583589--1583630	23	2.0	22	86	13	61	33	0	0	66	0.92
1584275--1584409	70	1.9	69	86	4	191	34	9	18	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1589830--1589861	2	16.0	2	100	0	64	50	0	0	50	1.00
1596783--1596809	4	6.8	4	100	0	54	74	0	0	25	0.83
1598783--1598809	12	2.2	12	100	0	54	85	0	0	14	0.61
1598793--1598844	17	3.1	17	80	0	59	65	0	0	34	0.93
1598857--1598891	15	2.4	15	90	4	54	22	17	28	31	1.96
1601348--1601415	32	2.1	34	83	5	86	47	2	7	42	1.46
1615693--1615722	15	2.0	15	100	0	60	26	0	6	66	1.16
1616430--1616455	2	13.0	2	100	0	52	50	0	0	50	1.00
1617560--1617601	15	2.8	16	86	13	54	64	0	0	35	0.94
1617686--1617717	15	2.1	16	94	5	57	62	0	0	37	0.95
1619451--1619480	16	1.9	15	93	6	51	23	13	16	46	1.82
1619644--1619677	3	11.3	3	100	0	68	67	0	32	0	0.91
1619791--1619820	15	2.0	15	93	0	51	43	0	0	56	0.99
1621093--1621128	18	1.9	19	88	5	56	41	0	2	55	1.14
1621091--1621128	12	3.1	12	82	17	51	44	0	2	52	1.14
1624364--1624433	25	2.8	25	77	10	65	60	1	1	37	1.15
1624427--1624481	27	2.0	28	83	16	71	50	0	0	49	1.00
1640219--1640273	16	3.3	16	73	24	51	49	0	1	49	1.11
1640218--1640275	18	3.3	18	71	21	52	48	0	1	50	1.11
1641177--1641201	2	12.5	2	100	0	50	52	0	0	48	1.00
1642419--1642466	24	2.0	25	84	15	66	50	4	0	45	1.21
1642419--1642466	23	2.0	24	84	15	64	50	4	0	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642983--1643040	11	5.2	11	79	10	64	25	1	3	68	1.14
1644787--1644832	21	2.2	20	82	17	58	28	0	2	69	1.00
1644798--1644853	10	5.1	10	78	21	51	33	0	0	66	0.92
1645146--1645198	16	3.1	16	73	10	52	45	0	1	52	1.11
1645438--1645476	18	2.1	19	86	13	55	30	0	0	69	0.89
1645455--1645545	43	2.1	43	83	4	112	47	2	3	47	1.31
1645715--1645752	11	3.5	11	85	0	58	34	5	0	60	1.19
1645711--1645777	27	2.5	27	82	4	73	26	4	4	64	1.32
1645762--1645795	16	2.1	16	88	0	50	29	2	0	67	1.05
1646044--1646092	22	2.1	24	85	7	66	46	2	0	51	1.12

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16