genome.fa.s8387.2.7.7.80.10.50.1000.8.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: VEPZ01008387.1 Hibiscus syriacus cultivar Beakdansim tig00111151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2491990

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

This is table  8  of  12  ( 1390 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)
1539872--1539932	2	30.5	2	100	0	122	50	0	0	49	1.00
1539963--1540059	28	3.3	29	72	16	74	60	4	4	30	1.34
1541406--1541476	3	23.0	3	77	5	61	56	0	0	43	0.99
1541399--1541482	18	4.5	18	85	10	107	54	0	0	45	0.99
1541435--1541482	9	5.3	9	76	0	51	56	0	0	43	0.99
1541613--1541714	45	2.3	45	91	3	161	38	19	19	22	1.94
1541648--1542366	76	9.6	76	95	2	1253	34	22	20	23	1.97
1541648--1542366	227	3.2	226	95	2	1256	34	22	20	23	1.97
1541648--1542366	151	4.8	152	95	1	1262	34	22	20	23	1.97
1543589--1543744	54	2.9	54	91	0	249	21	23	17	37	1.94
1545736--1546069	114	2.9	114	91	0	542	31	19	14	33	1.93
1552796--1552887	48	1.9	49	82	6	118	47	4	3	44	1.39
1552971--1553022	20	2.6	19	79	8	59	65	1	0	32	1.04
1554930--1555030	20	5.2	20	83	7	100	46	18	20	13	1.83
1554928--1555059	19	7.1	19	77	11	121	45	19	21	12	1.84
1555055--1555162	19	5.5	19	78	7	92	11	15	21	51	1.74
1555071--1555162	40	2.3	41	81	7	118	11	16	19	52	1.74
1555072--1555162	20	4.6	19	81	9	103	12	15	19	52	1.73
1555697--1555869	20	8.6	19	77	12	141	17	19	23	39	1.92
1555699--1555869	41	4.2	40	86	3	182	18	18	23	39	1.92
1555697--1555891	61	3.2	61	85	5	184	18	18	24	38	1.93
1555701--1555892	101	1.9	101	88	4	289	19	18	23	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1555877--1555950	21	3.6	21	74	17	57	18	20	22	37	1.94
1555942--1555992	20	2.5	20	78	6	59	15	15	31	37	1.89
1561256--1561292	19	1.9	19	88	0	56	64	2	0	32	1.07
1561459--1561497	19	2.1	19	85	9	53	66	0	0	33	0.92
1562336--1562376	18	2.2	19	95	4	75	0	14	4	80	0.87
1562763--1562868	3	34.7	3	84	3	140	61	0	1	35	1.13
1564600--1564642	21	2.0	22	86	13	63	4	27	0	67	1.10
1565381--1565422	17	2.4	18	92	4	68	23	2	0	73	0.94
1565972--1565999	12	2.3	12	100	0	56	53	7	0	39	1.28
1566008--1566052	24	1.9	23	81	4	54	62	13	2	22	1.42
1567994--1568023	12	2.5	12	100	0	60	0	16	10	73	1.09
1573435--1573518	22	3.8	22	79	14	91	22	29	26	21	1.99
1573928--1573960	15	2.1	16	88	5	50	24	0	15	60	1.35
1575730--1575811	23	3.6	22	78	6	83	42	1	37	18	1.58
1575741--1575813	22	3.3	22	86	3	110	39	0	43	16	1.48
1595821--1595861	2	20.5	2	100	0	82	48	0	0	51	1.00
1600434--1600526	41	2.2	42	86	1	125	31	20	18	30	1.96
1600510--1600543	17	2.0	17	94	0	59	23	26	11	38	1.89
1604408--1604523	51	2.2	52	84	1	144	49	9	3	37	1.52
1607337--1607400	29	2.2	30	97	2	121	20	9	12	57	1.62
1612255--1612339	43	2.0	43	97	0	161	43	21	5	29	1.76
1615158--1615219	24	2.6	22	76	14	61	41	0	4	53	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1620216--1620245	15	2.0	15	93	0	51	0	56	0	43	0.99
1620645--1620688	16	2.8	16	89	0	70	43	13	11	31	1.80
1622509--1622559	23	2.2	24	85	3	68	25	9	0	64	1.24
1626433--1626807	191	2.0	191	87	3	540	28	16	17	37	1.92
1626624--1627060	213	2.0	215	87	2	630	27	17	16	38	1.91
1628486--1628758	51	5.6	51	76	10	282	38	21	23	16	1.92
1628483--1628768	96	3.0	96	92	1	457	39	22	22	16	1.92
1630471--1630533	32	2.0	32	87	0	90	19	9	31	39	1.83
1630770--1630822	25	2.1	25	100	0	106	32	3	9	54	1.50
1630776--1630840	25	2.7	25	88	4	89	36	7	7	47	1.61
1631139--1631198	18	3.3	19	71	17	56	43	1	0	55	1.10
1631279--1631322	16	2.8	15	76	10	52	4	15	36	43	1.68
1631983--1632030	23	2.1	23	88	0	69	35	12	18	33	1.89
1632411--1632462	23	2.3	22	90	6	77	44	19	1	34	1.62
1632881--1633006	39	3.2	39	97	0	234	17	13	20	48	1.81
1633263--1633299	18	2.1	18	89	0	56	51	10	5	32	1.60
1633548--1633598	25	2.0	25	92	0	84	39	19	7	33	1.81
1633877--1633939	23	2.7	23	90	0	90	38	19	6	36	1.77
1634295--1634346	23	2.3	22	90	6	77	44	19	1	34	1.62
1634305--1634367	23	2.7	23	90	0	90	38	19	6	36	1.77
1633630--1634464	428	1.9	429	98	0	1602	39	12	8	39	1.74
1637335--1637377	22	1.9	23	90	4	70	44	13	11	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637373--1638066	183	3.8	183	96	1	1232	33	16	14	36	1.88
1639263--1639334	3	24.0	3	75	0	63	26	33	5	34	1.80
1639264--1639349	15	5.9	15	77	8	70	23	33	8	34	1.84
1640807--1641968	198	5.9	199	97	1	2211	30	15	16	36	1.91
1642087--1642134	18	2.6	18	90	3	69	56	10	2	31	1.45
1643913--1643978	33	2.0	33	90	0	105	22	48	0	28	1.51
1644011--1644075	21	3.1	21	80	6	69	15	29	15	40	1.88
1646294--1646340	20	2.3	20	86	10	69	19	17	8	55	1.67
1646296--1646349	20	2.7	20	85	5	56	20	16	9	53	1.70
1648210--1648255	19	2.3	20	92	3	76	13	10	23	52	1.71
1653275--1653358	2	42.0	2	97	0	69	50	13	0	36	1.41
1656203--1656260	29	2.0	29	100	0	116	34	24	31	10	1.89
1656721--1656784	29	2.2	29	82	2	74	43	7	10	37	1.69
1657644--1657699	20	2.8	20	97	0	103	25	30	10	33	1.90
1657947--1657971	12	2.1	12	100	0	50	36	8	32	24	1.84
1669521--1669557	18	2.0	19	89	5	58	24	10	13	51	1.73
1673016--1673100	38	2.2	38	83	4	109	18	9	21	50	1.75
1676135--1676199	3	22.0	3	87	9	98	66	0	1	32	1.01
1678663--1678720	29	2.0	29	82	3	71	25	3	22	48	1.66
1678795--1678823	12	2.4	12	100	0	58	17	0	10	72	1.11
1680869--1680895	11	2.5	11	100	0	54	14	0	0	85	0.61
1696615--1696686	32	2.3	32	83	11	87	30	4	8	56	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1702342--1702366	7	3.6	7	100	0	50	88	0	0	12	0.53
1711877--1711922	19	2.3	20	88	3	67	17	10	19	52	1.74
1714055--1714454	195	2.1	195	95	0	719	33	18	20	28	1.96
1714420--1714495	40	1.9	39	86	2	107	42	17	17	23	1.89
1715417--1715785	125	3.0	124	81	2	416	32	17	25	24	1.96
1716782--1716896	42	2.7	42	77	5	126	25	22	20	31	1.98
1716675--1717555	214	4.1	215	91	1	1345	32	15	18	32	1.92
1717452--1717517	22	3.1	21	72	16	64	27	18	15	39	1.90
1717442--1717551	42	2.6	42	85	5	134	28	19	17	35	1.94
1716673--1717555	430	2.1	431	89	1	1369	33	15	18	32	1.92
1721335--1721383	21	2.3	21	85	0	62	18	2	8	71	1.21
1721775--1721820	2	23.0	2	100	0	92	50	0	0	50	1.00
1737734--1737930	103	1.9	103	85	4	272	34	17	16	32	1.92
1739218--1739253	5	7.0	5	93	6	63	41	0	0	58	0.98
1739217--1739256	11	3.7	11	90	6	64	45	0	0	55	0.99
1751818--1751956	35	3.9	35	88	1	215	35	20	25	17	1.95
1751816--1751956	71	2.0	71	98	0	273	36	20	24	17	1.94
1757605--1757743	72	1.9	72	95	0	251	29	15	18	36	1.91
1766625--1766676	21	2.5	21	96	0	95	40	17	1	40	1.60
1767791--1767839	17	2.9	17	87	0	62	16	38	18	26	1.91
1768569--1769222	137	4.8	135	82	5	699	25	15	25	33	1.95
1768575--1769222	274	2.4	272	84	4	804	25	15	25	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769282--1769506	124	1.8	124	89	1	353	25	18	22	33	1.97
1770986--1771120	51	2.7	50	82	3	162	22	19	17	40	1.92
1772521--1772568	5	10.0	5	77	8	55	0	18	2	79	0.84
1772521--1772568	14	3.4	14	85	2	60	0	18	2	79	0.84
1772523--1772556	7	4.9	7	88	0	50	0	20	0	79	0.73
1778002--1778061	29	2.0	30	87	6	86	36	5	15	43	1.68
1778244--1778284	21	2.0	21	85	9	57	31	14	26	26	1.95
1778568--1778637	34	2.1	32	86	5	95	32	15	30	21	1.94
1781214--1781276	30	2.1	30	93	0	108	38	6	20	34	1.78
1781529--1781603	23	3.2	23	73	17	82	20	24	25	30	1.98

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