genome.fa.s153.2.7.7.80.10.50.1000.11.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: Scaffold153
Parameters: 2 7 7 80 10 50 1000
Length:  3137677

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   

This is table  11  of  24  ( 2803 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)
1510357--1510401	19	2.5	17	82	13	54	48	0	0	51	1.00
1510943--1511081	45	3.1	45	98	0	269	38	12	6	43	1.68
1512414--1512488	22	3.7	19	73	20	55	38	1	1	58	1.15
1512406--1512483	27	3.0	27	76	17	76	38	1	1	58	1.14
1513657--1513757	50	2.0	50	100	0	166	45	5	5	42	1.53
1514492--1514541	3	16.7	3	100	0	100	32	0	0	68	0.90
1514758--1514791	2	17.0	2	100	0	68	50	0	0	50	1.00
1514871--1514924	22	2.4	23	79	14	60	37	0	1	61	1.07
1514945--1515028	28	3.1	26	72	13	71	55	0	2	41	1.12
1514950--1515023	27	2.8	26	78	10	78	55	0	2	41	1.14
1515264--1515411	18	8.5	17	68	19	58	61	2	0	35	1.12
1515364--1515413	19	2.7	19	84	9	68	66	0	0	34	0.92
1515341--1515430	29	3.2	28	76	16	78	60	0	0	40	0.97
1517286--1517339	20	2.7	20	83	11	74	40	0	0	59	0.98
1517339--1517376	14	2.8	14	88	4	51	55	0	0	44	0.99
1517565--1517611	12	4.2	11	79	20	53	63	2	0	34	1.06
1517819--1517861	11	3.4	14	79	20	51	51	0	0	48	1.00
1517961--1517989	14	2.0	15	93	6	51	34	0	0	65	0.93
1517945--1518014	20	3.3	20	79	15	70	30	2	0	67	1.05
1518410--1518437	2	14.0	2	100	0	56	50	0	0	50	1.00
1519456--1519486	14	2.3	14	94	5	55	38	0	0	61	0.96
1521601--1521630	15	2.0	15	100	0	60	13	6	20	60	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1525506--1525564	22	2.7	22	97	0	109	50	0	8	40	1.33
1528857--1528891	18	1.9	18	94	0	61	77	5	8	8	1.13
1534697--1534747	26	2.0	25	88	11	77	54	0	0	45	0.99
1536793--1536817	2	12.5	2	100	0	50	52	0	0	48	1.00
1537241--1537273	2	16.5	2	100	0	66	48	0	0	51	1.00
1538295--1538340	3	15.3	3	100	0	92	32	0	0	67	0.91
1539909--1539949	20	2.0	20	90	4	64	56	0	0	43	0.99
1540310--1540351	17	2.5	17	84	3	50	50	0	0	50	1.00
1540845--1540979	27	4.7	29	69	20	95	57	0	1	40	1.08
1540848--1541000	8	17.1	9	65	19	54	58	1	1	37	1.17
1540837--1541009	59	3.1	57	76	17	173	57	1	2	39	1.19
1540868--1540949	32	2.5	32	86	5	103	56	0	1	42	1.07
1540837--1540979	60	2.5	56	76	17	166	57	0	2	40	1.11
1543619--1543674	20	2.8	19	78	10	58	57	1	0	41	1.09
1546801--1546830	11	2.8	11	95	5	53	73	0	0	26	0.84
1548808--1548854	19	2.5	19	89	6	69	40	0	8	51	1.33
1549191--1549251	31	2.0	30	84	12	79	55	0	0	44	0.99
1549213--1549251	16	2.5	16	95	4	71	51	0	0	48	1.00
1550883--1550922	2	20.0	2	100	0	80	50	0	0	50	1.00
1550922--1550960	2	19.5	2	100	0	78	51	0	48	0	1.00
1552928--1552966	2	19.5	2	100	0	78	48	0	0	51	1.00
1553602--1553638	3	12.3	3	100	0	74	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553787--1553890	36	2.9	36	80	9	106	34	0	2	62	1.10
1553838--1553890	19	2.9	18	75	13	54	32	0	1	66	1.03
1555034--1555089	22	2.6	22	78	16	64	53	0	0	46	1.00
1555311--1555374	21	3.0	21	77	6	56	40	0	0	59	0.97
1555487--1555544	29	2.0	29	83	6	73	37	0	0	62	0.96
1555529--1555577	25	2.0	25	84	8	64	38	2	2	57	1.22
1556851--1556899	16	3.1	16	77	11	55	61	0	0	38	0.96
1556828--1556887	25	2.5	25	77	22	74	58	0	0	41	0.98
1557045--1557140	7	13.7	7	72	20	60	39	1	1	58	1.12
1557037--1557079	20	2.0	21	82	8	52	51	0	0	48	1.00
1557104--1557150	22	2.2	20	88	7	67	29	0	4	65	1.11
1561247--1561307	31	1.9	31	86	3	86	40	0	1	57	1.08
1561645--1561703	19	2.9	19	75	22	57	57	1	1	38	1.19
1563100--1563136	13	2.6	15	91	8	60	56	0	2	40	1.13
1564300--1564351	25	2.1	26	85	7	72	63	0	0	36	0.95
1564780--1564817	17	2.2	18	90	4	60	73	0	0	26	0.83
1564791--1564852	17	3.8	16	79	14	63	64	0	0	35	0.94
1564785--1564897	16	6.9	16	66	25	51	58	0	0	41	0.98
1564808--1564902	33	2.8	34	80	9	122	53	0	0	46	1.00
1564802--1564940	28	4.8	27	66	18	66	58	0	0	40	1.03
1566632--1566664	2	16.5	2	100	0	66	48	0	0	51	1.00
1568344--1568395	20	2.6	19	79	8	59	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1568335--1568403	32	2.1	34	86	10	99	49	0	0	50	1.00
1568716--1568808	25	3.7	26	71	9	77	54	2	2	40	1.24
1568993--1569031	2	19.5	2	100	0	78	51	0	0	48	1.00
1569556--1569612	16	3.6	16	73	19	57	66	0	0	33	0.92
1570400--1570436	14	2.8	14	80	12	51	64	5	0	29	1.15
1571416--1571453	17	2.4	17	86	8	53	50	0	0	50	1.00
1574774--1574805	15	2.1	15	94	0	55	0	9	21	68	1.17
1577408--1577439	16	2.0	16	93	0	55	40	12	34	12	1.81
1577619--1577668	25	2.0	26	88	4	75	14	2	10	74	1.16
1579333--1579439	55	1.9	55	82	0	133	22	11	27	39	1.88
1582468--1582530	17	3.6	18	85	8	76	20	0	4	74	0.99
1583039--1583101	19	3.7	18	76	24	73	33	12	17	36	1.88
1583058--1583082	13	1.9	13	100	0	50	36	16	16	32	1.90
1583039--1583109	32	2.2	32	97	0	133	32	12	18	36	1.88
1590897--1590982	26	3.2	25	70	20	75	22	9	31	37	1.86
1590843--1591023	55	3.3	55	88	0	254	21	10	30	37	1.87
1590902--1590992	29	3.2	28	71	20	91	19	9	30	39	1.85
1598064--1598154	46	2.0	46	97	0	173	26	5	6	61	1.43
1598254--1598292	12	2.9	14	77	14	55	38	0	12	48	1.42
1599023--1599060	20	1.9	20	89	10	60	36	7	2	52	1.45
1603026--1603079	20	2.7	20	91	0	81	33	14	16	35	1.90
1609217--1609252	13	2.8	13	86	0	54	33	16	16	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611654--1611747	20	4.6	20	68	19	68	31	19	15	32	1.93
1613838--1613902	32	2.0	32	100	0	130	18	12	15	53	1.72
1614857--1614904	25	1.9	25	91	8	80	43	0	0	56	0.99
1614854--1614915	31	1.9	33	90	6	101	43	0	0	56	0.99
1614860--1614917	18	3.6	16	74	25	59	44	0	0	55	0.99
1614855--1614926	31	2.2	32	85	9	94	44	0	0	55	0.99
1615038--1615081	21	2.0	22	82	4	54	68	2	27	2	1.14
1615108--1615180	30	2.6	28	81	14	87	38	1	0	60	1.06
1615112--1615181	29	2.4	29	78	19	76	38	1	0	60	1.06
1616064--1616128	4	17.2	4	76	12	66	78	1	20	0	0.83
1616064--1616117	15	3.4	15	80	14	63	77	0	22	0	0.76
1616064--1616110	19	2.5	19	93	3	78	78	0	21	0	0.75
1616071--1616133	26	2.4	26	81	7	74	79	1	17	1	0.89
1616172--1616233	19	3.3	19	71	8	56	27	1	3	67	1.15
1617112--1617160	24	1.9	26	84	12	66	28	2	2	67	1.13
1617199--1617284	15	6.0	14	72	24	65	44	0	0	55	0.99
1619032--1619068	2	18.5	2	100	0	74	51	0	0	48	1.00
1620340--1620406	35	1.9	35	84	6	91	49	0	0	50	1.00
1621164--1621237	38	2.0	37	87	12	107	56	0	0	43	0.99
1621432--1621504	37	2.0	37	91	0	119	36	4	9	49	1.55
1622187--1622216	2	15.0	2	100	0	60	50	0	0	50	1.00
1622240--1622281	17	2.4	18	84	7	52	35	2	2	59	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1622252--1622303	22	2.2	24	83	12	65	28	3	3	63	1.30
1622295--1622327	11	2.8	12	81	9	50	30	0	0	69	0.88
1622784--1622826	20	2.2	20	87	4	61	51	2	0	46	1.13
1623720--1623751	9	3.8	9	84	16	50	28	0	0	71	0.86
1623717--1623751	16	2.1	17	94	5	63	28	0	0	71	0.86
1623877--1623913	2	18.5	2	100	0	74	51	0	0	48	1.00
1624145--1624171	11	2.5	11	100	0	54	33	0	0	66	0.92
1624350--1624385	8	4.4	8	89	6	54	47	2	0	50	1.15
1624350--1624385	17	2.2	16	90	5	54	47	2	0	50	1.15
1628780--1628814	11	3.2	11	87	0	52	34	0	2	62	1.10

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