genome.fa.s1743.2.7.7.80.10.50.1000.5.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: scaffold157
Parameters: 2 7 7 80 10 50 1000
Length:  1658850

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 570 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)
1420808--1420944	27	5.1	27	85	0	184	24	19	20	35	1.96
1420803--1420944	54	2.6	54	84	4	205	25	20	19	34	1.96
1422444--1422516	27	2.7	27	86	0	101	27	19	21	31	1.97
1425607--1425763	44	3.7	41	77	13	158	33	28	19	19	1.96
1425656--1425847	42	4.6	41	82	6	206	31	25	17	26	1.97
1428857--1429043	95	2.0	95	90	2	295	31	21	21	25	1.98
1430350--1430426	29	2.5	31	83	8	113	19	24	11	44	1.84
1440681--1440752	29	2.4	29	86	4	92	20	29	11	38	1.87
1440585--1440752	30	5.7	29	75	7	97	22	28	13	35	1.92
1451974--1452065	48	1.9	48	97	0	175	32	0	18	48	1.48
1451995--1452030	13	2.8	13	91	4	56	33	0	16	50	1.46
1459505--1459572	32	2.1	32	81	10	77	60	0	2	36	1.12
1462188--1462370	66	2.8	66	81	0	215	21	27	24	26	2.00
1466826--1466883	29	2.0	29	100	0	116	41	20	20	17	1.90
1470338--1470371	15	2.2	16	89	5	52	32	2	0	64	1.08
1472143--1472357	116	1.9	116	97	0	412	55	13	12	18	1.68
1475787--1475990	101	2.0	101	99	0	399	37	6	15	40	1.74
1476116--1476166	16	3.2	16	85	0	66	43	5	25	25	1.77
1476343--1476455	41	2.8	39	81	10	131	47	3	2	46	1.33
1479143--1479197	26	2.1	27	80	16	71	30	0	16	52	1.44
1480339--1480377	20	2.0	20	89	0	60	33	5	20	41	1.74
1483324--1483508	92	2.0	93	96	1	345	44	7	14	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1485525--1485558	5	7.0	5	93	6	61	41	0	0	58	0.98
1486512--1486624	22	5.0	22	78	10	120	17	26	18	37	1.93
1486499--1486624	47	2.7	46	87	6	175	17	26	19	37	1.93
1486499--1486578	25	3.3	24	82	10	110	15	27	22	35	1.94
1487641--1487953	159	2.0	161	88	1	477	50	15	15	19	1.77
1491050--1491075	11	2.4	11	100	0	52	19	0	15	65	1.27
1491327--1491354	13	2.2	13	100	0	56	50	21	0	28	1.49
1491254--1491457	83	2.5	82	89	1	300	49	14	6	28	1.69
1491535--1491988	156	2.9	156	80	8	431	31	13	16	37	1.88
1492449--1492485	15	2.4	16	86	13	51	16	5	0	78	0.93
1493228--1493288	28	2.2	28	85	11	81	32	4	1	60	1.28
1498341--1498382	21	2.0	21	90	0	66	28	19	28	23	1.98
1504788--1504984	108	1.8	108	85	0	277	27	14	7	50	1.69
1506178--1506607	44	9.8	44	79	5	406	29	21	26	23	1.99
1506162--1506425	87	3.0	87	76	5	280	29	21	25	23	1.99
1506162--1506793	175	3.5	174	75	10	606	29	20	25	23	1.99
1506178--1506607	219	2.0	219	92	1	711	29	21	26	23	1.99
1506606--1506708	44	2.3	44	83	3	118	31	17	28	23	1.97
1506457--1506743	149	1.9	149	92	1	486	29	20	26	22	1.99
1507500--1507536	15	2.4	16	86	13	51	16	5	0	78	0.93
1516347--1516402	17	3.4	16	78	11	60	41	0	1	57	1.09
1516347--1516401	5	11.2	5	74	18	53	40	0	1	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1516348--1516403	27	2.0	29	86	6	80	42	0	1	55	1.10
1519685--1519901	6	33.8	6	71	18	113	17	3	0	77	0.97
1519686--1519838	7	22.1	7	82	11	142	16	2	0	80	0.87
1519686--1519901	51	4.3	49	75	13	174	17	3	0	77	0.96
1519685--1519840	57	2.7	57	80	14	185	17	2	0	79	0.88
1528358--1528818	44	10.5	44	71	11	263	29	19	23	26	1.98
1528387--1528896	218	2.4	213	90	4	825	30	20	22	27	1.98
1529060--1529156	43	2.3	43	98	0	185	27	14	29	27	1.95
1530562--1530641	3	25.7	3	77	16	65	33	3	2	60	1.28
1530595--1530652	27	2.1	27	84	6	73	31	6	1	60	1.33
1530657--1530699	21	2.0	21	100	0	86	23	0	9	67	1.19
1530692--1530731	16	2.5	16	91	0	62	42	15	0	42	1.46
1540003--1540055	26	2.0	26	85	7	72	37	0	1	60	1.08
1552226--1552272	25	1.9	24	86	4	67	44	2	2	51	1.25
1552231--1552294	26	2.4	26	82	10	67	37	3	3	56	1.31
1558113--1558138	6	4.3	6	100	0	52	0	34	50	15	1.45
1558316--1558599	153	1.9	149	81	5	347	30	11	12	44	1.79
1563714--1564394	345	2.0	345	100	0	1362	43	15	15	25	1.86
1570258--1570286	3	9.7	3	100	0	58	34	0	0	65	0.93
1574276--1574342	32	2.1	32	91	0	107	13	38	28	19	1.89
1574393--1574430	9	3.8	10	86	10	51	13	0	10	76	1.02
1576734--1576762	6	4.8	6	100	0	58	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579518--1579707	84	2.3	84	95	0	335	46	3	4	45	1.40
1580610--1580652	22	2.0	22	85	0	59	37	25	0	37	1.56
1583363--1583449	41	2.1	43	80	8	99	37	33	3	25	1.73
1591228--1591257	2	15.0	2	100	0	60	50	0	0	50	1.00
1595380--1595424	16	2.6	16	83	16	54	44	0	24	31	1.54
1599331--1600929	46	34.8	46	99	0	3108	28	28	8	34	1.87
1602209--1602594	193	2.0	193	97	0	727	30	14	22	32	1.94
1605278--1605348	32	2.3	31	82	4	81	49	0	2	47	1.16
1605441--1605542	44	2.4	42	81	14	120	37	29	2	30	1.72
1605526--1605564	16	2.4	16	91	0	60	20	30	5	43	1.73
1605836--1605898	23	2.7	24	73	4	67	33	19	17	30	1.95
1606396--1606457	34	1.9	31	83	9	79	46	6	9	37	1.62
1607451--1607494	22	2.0	22	100	0	88	13	31	4	50	1.62
1620109--1620146	18	2.2	18	86	9	53	52	2	0	44	1.14
1620120--1620163	23	1.9	23	86	9	63	61	0	2	36	1.09
1623188--1623463	137	2.0	138	99	0	545	51	6	7	34	1.55
1624299--1624370	36	2.0	37	83	2	92	55	1	1	41	1.17
1624853--1624877	2	12.5	2	100	0	50	52	0	0	48	1.00
1630610--1630846	118	2.0	119	99	0	467	48	5	5	40	1.47
1634759--1634790	16	2.0	16	100	0	64	12	31	6	50	1.65
1641337--1641370	17	2.0	17	88	0	50	50	2	0	47	1.16
1649943--1649983	20	2.0	20	85	0	55	51	9	9	29	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656210--1656308	11	8.9	11	70	22	73	47	1	26	25	1.59
1656210--1656304	22	4.3	22	85	11	115	47	1	25	26	1.59

Tables:   1   2   3   4   5

The End!