genome.fa.s90.2.7.7.80.10.50.1000.10.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: Scaffold90
Parameters: 2 7 7 80 10 50 1000
Length:  1653315

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

This is table  10  of  10  ( 1200 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)
1462455--1462479	13	1.9	13	100	0	50	36	16	16	32	1.90
1463797--1463840	21	2.1	21	84	16	56	56	2	2	38	1.24
1465389--1465455	37	1.9	35	88	11	102	29	25	11	32	1.92
1466049--1466104	21	2.6	22	94	5	105	37	10	25	26	1.88
1466092--1466122	10	3.1	10	90	0	53	41	6	29	22	1.78
1466146--1466282	53	2.6	53	95	1	247	27	17	18	37	1.93
1466252--1466322	20	3.5	20	77	11	74	29	12	16	40	1.86
1466362--1466402	21	2.0	21	85	9	57	39	9	12	39	1.76
1466916--1466942	14	1.9	14	100	0	54	40	14	14	29	1.86
1467024--1467157	20	6.7	20	70	10	85	29	14	14	41	1.86
1467084--1467157	21	3.6	20	81	3	67	32	14	12	40	1.83
1470724--1470749	13	2.0	13	100	0	52	30	15	15	38	1.88
1470704--1470774	19	4.0	18	72	25	53	26	12	21	39	1.89
1473106--1473152	21	2.3	21	82	10	62	40	4	21	34	1.73
1473273--1473298	13	2.0	13	100	0	52	38	15	15	30	1.88
1475371--1475400	15	2.0	15	93	0	51	13	20	16	50	1.78
1477212--1477256	21	2.1	21	84	8	56	22	20	4	53	1.63
1481259--1481306	25	1.9	25	95	0	87	25	12	2	60	1.43
1481267--1481317	25	2.0	25	84	0	66	27	11	5	54	1.59
1482545--1482586	21	2.0	22	95	4	77	28	0	0	71	0.86
1483846--1483882	20	2.0	20	89	10	60	35	5	51	8	1.55
1493705--1493756	14	3.6	14	84	5	77	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1493705--1493757	7	7.2	8	73	26	55	62	0	0	37	0.96
1494818--1494873	21	2.6	22	82	5	69	41	0	3	55	1.17
1494921--1494993	24	3.0	24	82	7	69	61	0	4	34	1.15
1495026--1495063	18	2.1	18	85	9	51	57	0	0	42	0.98
1498182--1498220	2	19.5	2	83	0	51	46	0	5	48	1.24
1498842--1498890	25	2.0	25	91	0	80	4	18	14	63	1.46
1500177--1500282	53	2.0	53	98	0	203	26	9	16	48	1.76
1503181--1503219	17	2.3	17	86	0	51	35	5	5	53	1.45
1504444--1504481	19	2.0	19	90	10	60	39	0	0	60	0.97
1506742--1506770	12	2.5	12	94	5	51	48	0	0	51	1.00
1509556--1509629	20	3.7	20	81	3	103	35	13	20	31	1.91
1509574--1509649	21	3.7	21	82	3	109	40	11	18	28	1.86
1509556--1509649	41	2.3	41	100	0	188	38	12	19	29	1.89
1509688--1509713	13	2.0	13	100	0	52	38	15	15	30	1.88
1510016--1510058	22	1.9	22	81	13	52	18	16	9	55	1.67
1511927--1511971	21	2.1	21	84	8	56	53	4	20	22	1.63
1515388--1515413	13	2.0	13	100	0	52	30	15	15	38	1.88
1515452--1515527	21	3.7	21	73	19	79	30	17	11	40	1.85
1515473--1515545	20	3.6	20	81	3	101	31	19	13	35	1.91
1515452--1515545	41	2.3	41	96	3	172	30	18	12	38	1.88
1517961--1517999	13	3.0	13	96	0	69	35	15	17	30	1.91
1517985--1518063	20	3.7	20	78	15	77	44	15	15	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521865--1521909	21	2.1	21	84	8	56	22	20	4	53	1.63
1523338--1523363	13	2.0	13	100	0	52	30	15	15	38	1.88
1523402--1523477	21	3.7	21	78	3	91	30	17	10	42	1.82
1523423--1523495	20	3.6	20	81	3	101	31	19	13	35	1.91
1523402--1523495	41	2.3	41	96	0	170	30	18	11	39	1.86
1525016--1525040	13	1.9	13	100	0	50	32	20	16	32	1.94
1527491--1527564	20	3.7	20	81	3	103	35	13	20	31	1.91
1527509--1527584	21	3.7	21	82	3	109	40	11	18	28	1.86
1527491--1527584	41	2.3	41	100	0	188	38	12	19	29	1.89
1527623--1527648	13	2.0	13	100	0	52	38	15	15	30	1.88
1531384--1531422	20	2.0	20	89	0	60	38	15	12	33	1.85
1531478--1531536	21	2.9	21	84	2	84	35	10	15	38	1.81
1535495--1535567	37	2.0	37	100	0	146	35	19	15	30	1.92
1536619--1536685	6	11.2	6	79	9	66	65	2	1	29	1.16
1538451--1538556	40	2.6	40	72	10	99	47	15	18	18	1.83
1539039--1539286	62	4.0	62	82	1	284	38	14	17	29	1.89
1539223--1539436	77	2.8	76	84	4	286	41	10	19	28	1.85
1542776--1542801	13	2.0	13	100	0	52	38	15	15	30	1.88
1550901--1550926	13	2.0	13	100	0	52	38	15	15	30	1.88
1550883--1550946	32	2.0	33	87	3	94	40	17	14	28	1.88
1558940--1559463	264	2.0	264	98	0	1021	39	8	21	29	1.84
1559938--1559963	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559920--1559983	32	2.0	33	87	3	94	40	17	14	28	1.88
1560922--1561781	436	2.0	435	93	0	1459	37	17	16	28	1.91
1562083--1562109	13	2.1	13	100	0	54	40	14	14	29	1.86
1565367--1565488	52	2.3	52	92	0	199	27	16	18	37	1.92
1565374--1565509	52	2.6	52	86	4	168	31	16	16	35	1.91
1565498--1565522	13	1.9	13	100	0	50	40	8	16	36	1.77
1565565--1565631	33	2.0	33	88	0	98	40	14	11	32	1.83
1565587--1565611	13	1.9	13	100	0	50	32	16	16	36	1.90
1566758--1566976	78	2.7	79	74	12	207	33	19	11	35	1.88
1566757--1567032	82	3.4	79	74	11	224	34	20	10	34	1.87
1571384--1571424	19	2.2	19	95	0	73	31	4	31	31	1.79
1576952--1577004	13	4.5	13	73	26	64	37	16	13	32	1.88
1576952--1577020	33	2.1	33	91	5	113	37	18	13	30	1.89
1577070--1577096	13	2.1	13	100	0	54	40	14	14	29	1.86
1583819--1583845	13	2.1	13	100	0	54	29	14	14	40	1.86
1583894--1583960	33	2.0	33	88	5	100	35	13	16	34	1.88
1590112--1590137	13	2.0	13	100	0	52	30	15	15	38	1.88
1592009--1592046	18	2.2	17	95	4	67	36	10	31	21	1.87
1597320--1597344	13	1.9	13	100	0	50	32	16	20	32	1.94
1597334--1597385	20	2.6	20	100	0	104	38	11	19	30	1.87
1603499--1603542	20	2.2	20	84	8	54	34	15	13	36	1.87
1606806--1606860	20	2.7	21	88	5	78	36	20	10	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606887--1606924	20	1.9	20	100	0	76	31	15	13	39	1.86
1606910--1607033	13	11.1	13	67	27	72	40	16	13	29	1.87
1606890--1607033	65	2.2	65	97	0	270	38	15	13	31	1.87
1606890--1607052	65	2.5	65	92	2	238	39	15	14	30	1.87
1607137--1607545	208	2.0	208	92	2	689	35	12	11	41	1.79
1614644--1614697	28	1.9	28	96	0	99	33	16	14	35	1.90
1614673--1614765	35	2.7	35	76	3	107	27	17	12	41	1.86
1614832--1614900	32	2.2	33	78	7	79	33	26	10	30	1.89
1614845--1615015	32	5.3	32	73	9	98	36	22	14	26	1.93
1614848--1615055	96	2.2	96	81	1	247	37	23	14	24	1.92
1615677--1615756	33	2.4	33	87	0	115	40	27	6	26	1.80
1622509--1622547	18	2.0	20	85	9	55	71	2	0	25	0.98
1627622--1627770	52	2.9	51	86	4	217	30	16	18	34	1.93
1627759--1627783	13	1.9	13	100	0	50	36	16	16	32	1.90
1627824--1627890	33	2.0	33	88	0	98	40	14	11	32	1.83
1627846--1627870	13	1.9	13	100	0	50	32	16	16	36	1.90
1628577--1628629	22	2.3	23	84	12	65	54	15	3	26	1.57
1628661--1628704	21	2.2	20	83	4	52	43	13	4	38	1.65
1630035--1630089	18	2.9	19	86	8	76	36	16	16	30	1.91
1630074--1630100	13	2.1	13	100	0	54	40	14	14	29	1.86
1636976--1637010	15	2.3	15	95	0	61	28	28	0	42	1.56
1638598--1638651	20	2.7	20	88	5	74	33	22	12	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639262--1639286	13	1.9	13	100	0	50	8	0	4	88	0.64
1647253--1647540	147	2.0	148	83	2	364	39	20	13	26	1.90
1647562--1647672	58	1.9	58	92	0	186	35	15	15	34	1.89
1649537--1649923	146	2.6	147	83	4	431	50	9	7	32	1.63
1650895--1651171	66	4.2	65	76	9	224	42	18	21	16	1.89
1650866--1651110	65	3.7	63	77	11	217	42	17	21	18	1.90
1650829--1651215	66	5.9	65	73	9	162	42	18	22	16	1.89
1651658--1651817	77	2.1	77	81	5	180	44	10	15	30	1.79
1652214--1652253	21	1.9	21	89	0	62	57	5	17	20	1.58
1652572--1652604	15	2.1	17	88	11	52	9	3	0	87	0.63

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

The End!