genome.fa.s109.2.7.7.80.10.50.1000.11.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: Scaffold109
Parameters: 2 7 7 80 10 50 1000
Length:  1855911

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

This is table  11  of  13  ( 1516 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)
1507819--1507847	6	4.8	6	100	0	58	31	0	0	68	0.89
1508103--1508183	35	2.3	36	80	16	100	40	4	0	54	1.22
1508627--1508680	23	2.3	25	75	15	62	64	0	0	35	0.94
1510051--1510107	29	2.0	29	96	3	107	38	10	26	24	1.88
1510052--1510122	29	2.5	29	84	6	74	43	8	22	25	1.81
1514667--1514724	29	2.0	29	93	0	98	39	12	25	22	1.89
1521324--1521378	2	27.5	2	96	0	101	50	0	0	49	1.00
1522488--1522516	15	1.9	15	100	0	58	62	17	0	20	1.33
1523053--1523096	15	2.9	15	86	10	54	59	2	4	34	1.30
1524364--1524399	17	2.0	19	89	10	58	44	0	0	55	0.99
1524383--1524424	17	2.4	18	84	7	61	47	0	2	50	1.14
1524725--1524750	10	2.6	10	100	0	52	73	0	0	26	0.84
1525323--1525369	18	2.5	20	75	10	53	42	0	0	57	0.98
1525386--1525443	22	2.6	23	83	5	75	36	0	0	63	0.94
1525436--1525503	27	2.6	27	77	13	70	39	1	0	58	1.07
1525416--1525478	21	3.0	21	73	11	67	36	1	0	61	1.05
1528117--1528154	16	2.2	18	86	9	53	60	0	0	39	0.97
1530914--1530942	13	2.1	14	93	6	51	31	6	3	58	1.41
1531147--1531188	18	2.3	18	84	8	50	73	0	2	23	0.94
1531774--1531805	16	2.0	16	93	0	55	53	6	28	12	1.62
1537195--1537295	28	3.4	28	73	19	82	42	0	0	56	1.06
1537223--1537338	9	13.0	9	72	21	59	41	1	0	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537185--1537301	52	2.2	55	75	21	133	41	0	0	57	1.05
1537221--1537364	19	7.5	19	73	16	109	43	2	0	54	1.11
1539847--1539886	18	2.3	17	83	8	53	35	0	0	65	0.93
1539855--1539900	18	2.6	18	85	0	56	36	0	0	63	0.95
1541855--1541888	14	2.4	14	90	9	52	29	2	17	50	1.61
1543387--1543662	137	2.0	137	97	0	525	36	18	9	35	1.84
1547620--1547659	3	13.3	3	100	0	80	67	0	0	32	0.91
1550266--1550374	37	2.7	38	77	17	103	41	1	1	55	1.21
1550320--1550368	20	2.3	21	79	13	55	40	0	0	59	0.98
1550442--1550494	29	2.0	29	85	14	78	32	3	0	64	1.12
1551645--1551673	2	14.5	2	100	0	58	51	0	0	48	1.00
1553417--1553462	14	3.3	14	79	17	51	32	2	0	65	1.05
1553417--1553470	27	2.0	28	85	3	74	35	1	0	62	1.06
1553533--1553573	18	2.3	18	87	8	57	36	2	0	60	1.10
1553598--1553647	13	4.0	13	77	17	61	36	0	0	64	0.94
1553625--1553672	5	10.4	5	74	17	50	43	0	0	56	0.99
1553625--1553670	18	2.6	18	100	0	92	43	0	0	56	0.99
1556108--1556201	37	2.4	40	76	21	101	46	0	1	52	1.07
1556128--1556206	38	2.2	35	80	13	90	46	0	0	53	1.00
1557094--1557140	24	2.0	23	83	4	58	63	0	4	31	1.13
1558659--1558694	19	1.9	19	88	5	56	50	2	5	41	1.40
1558732--1558821	31	2.8	32	72	19	87	56	2	1	40	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562732--1563035	100	3.0	99	83	4	385	37	8	15	39	1.77
1562733--1563030	102	3.0	99	83	4	373	37	8	15	38	1.78
1565022--1565056	17	1.9	18	88	11	54	37	0	0	62	0.95
1565609--1565688	9	9.4	9	71	25	59	51	3	1	43	1.27
1565868--1565903	17	2.2	16	90	5	54	41	0	0	58	0.98
1567889--1567942	25	2.3	23	74	6	54	40	0	1	57	1.09
1568384--1568435	22	2.4	22	80	6	61	48	5	0	46	1.26
1569510--1569534	2	12.5	2	100	0	50	52	0	0	48	1.00
1569628--1569675	24	2.0	24	84	11	64	62	0	2	35	1.07
1573147--1573180	5	6.8	5	87	12	52	2	14	0	82	0.79
1573146--1573207	14	4.2	14	78	15	54	3	17	1	77	0.98
1573860--1573936	21	3.8	21	81	3	86	44	15	9	31	1.78
1574553--1574595	20	2.2	20	87	8	61	67	6	4	20	1.33
1577449--1577939	49	10.0	49	90	6	782	17	17	4	60	1.51
1577449--1577939	97	5.0	98	90	6	782	17	17	4	60	1.51
1577449--1577976	145	3.6	145	86	9	589	17	16	4	61	1.49
1577934--1578044	47	2.3	46	76	13	107	22	0	4	72	1.09
1578367--1578398	17	2.0	17	88	11	50	62	12	21	3	1.43
1578497--1579671	42	27.4	42	77	9	917	36	19	31	13	1.90
1578513--1578969	127	3.6	127	87	0	603	35	19	31	13	1.91
1578861--1579217	110	3.1	110	81	10	351	38	17	31	12	1.87
1581934--1582254	122	2.6	123	86	8	444	54	1	3	40	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1582203--1582297	48	2.0	46	81	4	109	51	1	1	46	1.15
1582597--1582877	111	2.5	113	86	8	367	42	1	2	53	1.23
1582793--1582933	68	2.1	67	83	8	182	42	0	1	56	1.08
1586380--1586422	20	2.2	19	84	12	52	58	4	13	23	1.55
1586380--1586596	58	3.7	58	77	7	201	56	8	10	24	1.60
1586368--1586623	58	4.4	56	72	14	157	53	10	10	24	1.67
1587957--1587993	10	3.5	11	92	7	60	0	16	5	78	0.93
1589968--1590042	20	3.8	20	78	0	87	34	13	12	40	1.81
1589968--1590045	40	2.0	39	87	2	111	34	12	12	39	1.82
1594401--1594444	20	2.2	20	84	11	56	61	6	0	31	1.22
1598467--1598505	13	3.0	13	88	0	60	41	10	2	46	1.51
1602612--1602712	47	2.2	46	89	1	148	24	10	12	51	1.72
1603564--1603714	66	2.3	64	86	4	196	55	11	6	25	1.60
1604295--1604331	16	2.2	17	90	4	58	35	0	0	64	0.94
1604904--1604935	13	2.5	13	100	0	64	59	0	0	40	0.97
1606342--1606400	24	2.4	23	70	10	55	52	13	3	30	1.57
1606541--1606571	12	2.5	13	94	5	55	54	0	0	45	0.99
1612054--1612331	138	2.0	138	98	0	538	33	21	18	26	1.96
1613543--1613580	18	2.1	18	95	0	67	0	57	0	42	0.98
1618972--1619013	14	2.8	15	85	10	59	59	4	11	23	1.51
1620942--1620983	12	3.8	11	84	9	59	38	0	0	61	0.96
1621472--1621506	11	3.1	11	87	4	52	48	0	2	48	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621477--1621543	11	6.0	11	74	10	55	55	1	1	41	1.18
1621472--1621539	23	3.0	23	80	4	68	52	1	1	44	1.19
1626241--1626324	5	17.0	5	73	16	59	38	0	0	61	0.96
1626246--1626324	20	4.0	19	82	9	79	36	0	0	63	0.95
1628577--1628618	2	21.0	2	100	0	84	50	0	0	50	1.00
1630058--1630089	14	2.2	15	94	5	57	40	0	0	59	0.97
1630074--1630150	21	4.0	20	75	16	81	37	0	5	57	1.21
1630065--1630153	38	2.5	35	81	12	108	38	0	4	57	1.19
1630080--1630152	38	1.9	37	91	2	119	38	0	5	56	1.23
1630205--1630254	21	2.4	21	83	6	57	32	0	4	64	1.12
1630247--1630289	19	2.2	20	84	12	54	51	2	9	37	1.47
1632502--1632531	2	15.0	2	100	0	60	50	0	0	50	1.00
1633527--1633558	2	16.0	2	100	0	64	50	0	0	50	1.00
1634013--1634048	18	2.0	18	88	0	54	50	0	0	50	1.00
1634352--1634388	2	18.5	2	100	0	74	51	0	0	48	1.00
1635631--1635798	58	2.6	67	67	27	157	51	4	10	33	1.56
1636284--1636315	15	2.1	15	94	0	55	40	15	0	43	1.47
1636284--1636333	17	3.1	17	85	5	68	42	12	0	46	1.41
1636706--1636730	2	12.5	2	100	0	50	52	0	0	48	1.00
1637923--1637961	2	19.5	2	94	0	69	51	2	0	46	1.14
1639174--1639200	4	6.8	4	100	0	54	77	0	0	22	0.76
1639559--1639591	8	4.2	8	96	3	59	78	0	0	21	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639864--1639910	15	3.1	15	81	6	51	38	0	0	61	0.96
1639895--1639943	24	2.1	24	84	3	64	51	0	0	48	1.00
1645900--1645929	2	15.0	2	92	0	51	46	0	3	50	1.18
1646408--1646457	2	25.5	2	91	4	84	50	0	0	50	1.00
1646625--1646661	10	3.4	11	88	11	58	59	0	0	40	0.97
1647455--1647511	26	2.2	26	93	0	96	54	0	1	43	1.10
1651941--1652009	13	4.9	14	70	20	54	42	2	8	46	1.49
1652166--1652229	24	2.6	24	78	7	67	18	6	1	73	1.12
1652474--1652598	66	2.0	62	84	12	164	52	2	1	44	1.24
1652759--1652784	4	6.5	4	100	0	52	53	0	0	46	1.00

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