genome.fa.s407.2.7.7.80.10.50.1000.11.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  11  of  28  ( 3302 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)
1566851--1566891	22	1.9	21	85	5	55	53	0	2	43	1.13
1566846--1566902	27	2.1	27	83	6	71	52	0	1	45	1.11
1574345--1574421	20	3.8	20	79	6	93	41	11	14	32	1.82
1574297--1574468	91	1.9	90	91	1	281	43	10	15	30	1.80
1574388--1574482	50	1.9	50	91	0	154	46	7	14	31	1.72
1575456--1575577	49	2.6	46	79	7	129	31	19	25	22	1.98
1575630--1575722	32	2.9	32	84	4	109	29	16	24	30	1.96
1575668--1575968	28	10.5	28	81	7	284	23	18	28	29	1.98
1575653--1575968	58	5.5	57	80	9	311	23	18	28	29	1.98
1575668--1575968	86	3.5	85	84	4	363	23	18	28	29	1.98
1575670--1575950	114	2.4	114	84	5	352	24	18	28	28	1.98
1575689--1575966	142	1.9	144	84	5	368	22	19	29	28	1.98
1577177--1577220	9	4.7	9	85	5	52	0	0	15	84	0.63
1577177--1577229	15	3.5	14	79	20	54	1	0	16	81	0.79
1577189--1577220	9	3.7	9	91	8	57	0	0	15	84	0.63
1577189--1577247	17	3.4	17	77	15	66	1	1	18	77	0.93
1577196--1577264	35	2.0	35	91	5	113	2	2	20	73	1.09
1591074--1591099	13	2.0	13	100	0	52	30	15	15	38	1.88
1591138--1591191	20	2.7	20	91	5	83	25	14	12	46	1.81
1593449--1593682	51	4.5	51	74	7	204	27	24	11	35	1.91
1593454--1593681	102	2.2	101	84	4	296	28	25	11	35	1.90
1593652--1593707	28	2.0	28	89	0	85	19	28	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593606--1593891	108	2.7	106	78	4	313	27	25	14	32	1.94
1593788--1593993	79	2.6	79	80	4	211	26	28	14	30	1.95
1593866--1594039	79	2.2	79	82	4	206	26	27	14	31	1.95
1595516--1595592	20	3.9	19	81	8	100	41	11	14	32	1.82
1595575--1595656	20	3.3	24	67	26	64	43	12	18	25	1.84
1596550--1596617	35	1.9	35	93	0	118	39	27	1	30	1.66
1596966--1597034	35	2.0	35	97	0	129	37	30	2	28	1.72
1596356--1597188	417	2.0	416	99	0	1639	37	17	11	33	1.86
1597322--1597356	17	1.9	18	88	11	54	48	8	8	34	1.64
1598518--1598543	13	2.0	13	100	0	52	30	15	15	38	1.88
1599252--1599295	21	2.1	21	83	8	54	25	31	4	38	1.76
1599284--1599335	25	2.1	25	100	0	104	48	11	3	36	1.58
1599284--1599327	14	3.4	14	75	18	58	47	13	4	34	1.63
1601127--1601165	13	3.0	13	100	0	78	38	15	15	30	1.88
1601151--1601229	20	3.7	20	73	15	68	44	16	13	25	1.85
1605078--1605122	21	2.1	21	84	8	56	22	20	4	53	1.63
1606190--1606215	13	2.0	13	100	0	52	38	15	15	30	1.88
1608433--1608477	21	2.1	21	84	8	56	53	4	20	22	1.63
1610281--1610311	15	2.1	15	93	0	53	48	16	22	12	1.80
1612325--1612404	20	3.8	20	75	15	79	26	15	15	43	1.85
1612390--1612426	13	2.8	13	95	0	65	29	16	16	37	1.90
1617283--1617308	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621518--1621666	52	2.9	51	89	4	235	30	17	18	32	1.94
1621655--1621679	13	1.9	13	100	0	50	36	16	16	32	1.90
1621720--1621786	33	2.0	33	88	0	98	40	14	11	32	1.83
1621742--1621766	13	1.9	13	100	0	50	32	16	16	36	1.90
1622751--1622781	12	2.6	12	94	0	53	45	0	25	29	1.54
1629652--1629703	20	2.7	18	78	18	52	51	5	7	34	1.54
1629664--1629703	20	2.0	21	90	5	64	50	7	7	35	1.59
1629874--1629911	13	2.9	13	88	0	58	31	15	21	31	1.94
1631147--1631186	16	2.5	16	83	0	53	47	12	15	25	1.80
1633331--1633381	24	2.1	24	92	0	84	66	3	7	21	1.34
1633602--1633654	21	2.6	21	82	11	67	41	0	0	58	0.98
1634755--1634815	10	5.8	10	70	11	50	72	1	4	21	1.13
1635528--1635650	44	2.8	44	72	12	103	52	0	0	46	1.06
1635616--1635658	17	2.5	19	78	21	58	67	0	0	32	0.91
1635616--1635659	16	2.6	16	83	16	54	68	0	0	31	0.90
1636409--1636502	8	10.9	8	74	18	73	60	2	1	36	1.16
1636410--1636501	9	10.4	9	69	13	50	61	2	1	34	1.15
1636410--1636492	26	3.1	26	75	13	78	61	2	1	34	1.17
1636347--1636505	8	19.1	8	71	20	71	61	3	1	33	1.22
1636346--1636500	18	8.8	17	72	20	97	61	3	1	33	1.22
1636538--1636673	28	4.8	27	70	20	98	34	0	1	63	1.03
1636567--1636602	17	2.1	18	90	10	58	22	0	0	77	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636588--1636672	34	2.4	35	81	11	102	37	0	1	61	1.04
1636618--1636665	18	2.7	18	80	3	62	35	0	2	62	1.07
1636649--1636761	10	11.1	10	69	18	65	24	1	4	69	1.17
1636699--1636754	19	2.9	19	76	10	60	25	0	1	73	0.93
1636981--1637015	18	1.9	18	94	0	61	51	0	0	48	1.00
1638079--1638116	20	1.9	20	88	0	58	50	2	5	42	1.39
1638186--1638280	7	13.0	7	75	19	63	56	0	0	43	0.99
1638186--1638294	31	3.5	31	83	7	121	54	0	0	44	1.06
1638194--1638286	14	6.5	14	74	17	75	53	0	1	45	1.07
1638222--1638300	17	5.0	17	75	17	62	46	0	2	50	1.14
1638456--1638563	54	2.0	54	96	0	198	27	13	18	39	1.89
1638863--1638923	33	1.9	33	83	9	83	49	0	0	50	1.00
1639628--1639657	16	1.9	15	93	6	51	86	3	0	10	0.67
1640009--1640081	5	15.2	5	72	13	55	63	0	1	35	1.04
1640037--1640087	16	3.1	16	75	10	50	66	0	0	33	0.92
1640035--1640081	21	2.4	19	79	10	51	65	0	0	34	0.93
1640051--1640088	16	2.2	17	86	13	51	68	0	0	31	0.90
1640043--1640089	15	3.0	15	77	17	51	65	0	0	34	0.93
1642502--1642640	73	1.9	73	88	1	208	44	7	10	37	1.67
1643734--1643777	21	2.2	19	84	15	54	34	0	0	65	0.93
1645888--1645963	13	6.3	13	75	17	67	64	0	0	35	0.94
1645876--1645956	35	2.3	36	83	8	105	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645903--1645962	24	2.5	25	84	10	81	66	0	0	33	0.92
1645924--1646063	62	2.3	60	77	14	142	60	0	0	39	1.02
1646549--1646750	112	1.8	112	82	0	260	46	3	4	46	1.40
1646947--1646984	14	2.6	15	79	8	51	55	0	5	39	1.23
1647521--1647600	28	2.9	26	78	15	81	70	3	2	23	1.16
1647609--1647657	22	2.2	23	88	3	73	75	6	4	14	1.14
1648204--1648234	2	15.5	2	100	0	62	51	0	0	48	1.00
1649047--1649113	17	3.8	17	75	16	57	41	0	1	56	1.08
1649729--1649763	5	7.2	5	87	6	54	42	2	0	54	1.15
1649719--1649763	10	4.8	9	86	2	54	40	2	4	53	1.33
1650185--1650216	5	6.4	5	92	0	55	0	3	21	75	0.95
1650675--1650710	11	3.2	12	88	11	58	33	0	0	66	0.92
1650675--1650709	12	3.0	11	91	8	52	31	0	0	68	0.90
1650673--1650728	22	2.5	22	82	11	69	35	0	0	64	0.94
1650720--1650870	30	4.6	31	68	18	83	46	1	0	52	1.09
1650773--1650818	22	2.2	20	84	7	56	47	2	0	50	1.13
1650798--1650905	28	3.9	28	65	17	73	44	0	0	54	1.06
1650674--1650902	103	2.2	106	81	14	294	44	0	0	54	1.09
1651180--1651205	13	2.0	13	100	0	52	53	0	0	46	1.00
1654252--1654276	2	12.5	2	100	0	50	52	0	48	0	1.00
1657281--1657323	3	14.3	3	92	0	68	27	32	2	37	1.70
1657434--1657528	6	15.8	6	69	8	59	3	36	12	47	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657416--1657527	30	3.7	30	84	4	136	2	38	9	49	1.50
1660022--1660067	23	2.0	23	83	8	58	45	2	0	52	1.13
1660069--1660134	30	2.5	26	73	16	64	42	1	0	56	1.08
1660071--1660136	27	2.4	28	79	16	77	42	1	0	56	1.08
1660920--1660963	13	3.5	13	78	6	54	27	0	0	72	0.85
1660980--1661008	14	2.1	14	93	6	51	82	0	0	17	0.66
1660962--1661006	19	2.4	19	85	10	58	77	2	0	20	0.87
1661187--1661220	16	2.1	17	94	5	61	50	0	2	47	1.16
1661214--1661280	31	2.2	31	79	12	77	46	0	0	53	1.00
1661454--1661500	15	3.1	15	76	11	60	70	0	0	29	0.88

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