genome.fa.s8942.2.7.7.80.10.50.1000.8.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: VEPZ01008942.1 Hibiscus syriacus cultivar Beakdansim tig00112261_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2383254

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

This is table  8  of  11  ( 1310 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)
1556540--1556647	20	5.8	19	72	13	82	16	22	21	39	1.92
1556475--1556647	72	2.5	71	86	7	230	15	23	19	41	1.89
1556475--1556620	33	4.2	33	85	10	211	13	23	19	43	1.87
1560061--1560340	20	13.9	19	75	11	152	20	18	24	37	1.94
1560069--1560378	40	7.7	39	82	5	219	19	18	24	38	1.93
1560067--1560257	60	3.2	59	86	3	265	20	18	23	38	1.93
1560064--1560317	40	6.3	41	84	4	248	19	18	24	38	1.93
1560326--1560378	20	2.7	20	91	5	81	13	18	24	43	1.86
1560428--1560481	20	2.7	19	73	18	56	18	18	31	31	1.95
1561433--1561463	13	2.4	13	100	0	62	6	29	16	48	1.70
1562488--1562707	45	4.9	45	92	3	363	31	20	6	40	1.79
1562789--1562869	40	2.0	40	82	0	99	24	23	24	27	2.00
1572134--1572239	46	2.3	46	85	1	151	32	8	20	38	1.83
1572455--1572920	58	8.1	58	81	5	435	37	8	12	42	1.72
1572455--1572865	115	3.6	115	86	3	524	37	8	12	41	1.74
1572455--1572960	115	4.4	117	82	7	482	37	7	11	43	1.70
1572455--1572920	173	2.7	171	78	6	467	37	8	12	42	1.72
1572798--1572970	58	3.0	57	81	8	190	36	6	8	47	1.61
1573001--1573074	39	1.9	39	83	8	98	37	4	6	51	1.47
1573105--1573230	39	3.2	38	76	8	119	36	4	10	48	1.58
1586972--1587030	3	20.0	3	73	16	52	33	5	0	61	1.18
1595454--1595526	20	3.7	20	88	0	101	26	21	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1595454--1595535	40	2.0	40	83	0	101	25	21	17	35	1.95
1595613--1595731	40	2.9	41	74	12	127	37	19	19	23	1.94
1595629--1595914	128	2.2	128	89	0	419	39	17	18	24	1.92
1601281--1601309	10	3.0	10	95	5	51	37	20	0	41	1.53
1609319--1609363	22	2.0	22	100	0	90	42	17	8	31	1.80
1611428--1611467	21	1.9	21	84	0	53	45	5	12	37	1.64
1612420--1612471	20	2.6	20	84	6	61	36	19	9	34	1.84
1623876--1624046	92	1.9	87	88	8	254	29	2	12	56	1.48
1628507--1628558	24	2.2	24	96	0	95	30	25	11	32	1.91
1636520--1636578	24	2.5	24	94	0	100	32	20	5	42	1.74
1636738--1636789	21	2.5	21	81	12	63	34	11	0	53	1.37
1639350--1639390	11	3.7	11	80	0	55	53	2	14	29	1.54
1639342--1639392	22	2.3	22	96	0	93	52	3	17	25	1.61
1640919--1640980	29	2.1	30	82	8	74	41	6	3	48	1.45
1651572--1651617	20	2.3	20	88	3	67	36	26	0	36	1.57
1652999--1653032	13	2.5	14	85	9	52	20	8	0	70	1.13
1660174--1660336	81	2.0	80	85	1	218	38	11	21	28	1.89
1660177--1660367	81	2.4	79	82	2	211	37	10	21	30	1.87
1660227--1660385	81	2.0	81	80	5	178	40	10	20	28	1.85
1660575--1660847	26	11.4	26	76	13	207	46	8	20	24	1.79
1660547--1660924	46	8.1	46	73	13	217	45	8	21	24	1.79
1660553--1660626	20	3.4	20	70	20	58	45	5	25	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1660575--1660774	98	2.1	92	84	7	249	46	8	21	24	1.78
1660697--1660796	20	4.7	20	74	13	101	42	10	26	22	1.84
1660646--1660861	72	3.1	68	82	8	247	45	9	21	23	1.81
1660813--1660934	45	2.7	44	78	8	129	45	7	22	24	1.78
1664337--1664496	74	2.1	74	79	3	169	35	14	20	29	1.92
1665164--1665301	68	2.0	68	85	0	186	31	15	23	28	1.95
1665233--1665425	81	2.4	81	85	1	244	34	13	23	28	1.93
1665519--1665571	2	26.5	2	92	0	88	47	1	1	49	1.23
1665646--1665817	26	6.6	25	76	20	158	44	10	20	23	1.83
1665620--1665772	72	2.1	72	90	3	238	47	9	18	24	1.79
1669791--1669900	55	2.0	55	87	3	141	37	4	26	31	1.77
1669805--1669917	55	2.1	55	96	0	208	36	4	25	33	1.76
1670058--1670194	68	2.0	68	88	0	202	30	16	25	27	1.96
1670125--1670286	81	2.0	81	82	0	198	36	12	22	27	1.91
1670416--1670459	2	22.0	2	100	0	88	50	0	0	50	1.00
1670460--1670500	2	20.5	2	92	0	55	4	0	41	53	1.22
1670557--1670898	46	7.4	46	95	0	603	43	9	24	22	1.83
1670887--1671047	46	3.5	46	86	2	207	47	9	18	24	1.78
1670767--1671010	118	2.1	118	87	1	346	45	9	20	23	1.80
1675982--1676059	23	3.3	22	81	15	77	48	19	7	24	1.74
1679088--1679129	18	2.4	18	88	4	68	52	2	4	40	1.35
1684567--1684667	29	3.4	29	68	21	77	31	18	6	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1689163--1689229	34	1.9	34	85	14	93	41	0	7	50	1.30
1689169--1689408	78	3.0	82	84	8	339	39	4	10	45	1.58
1689249--1689291	23	1.9	22	90	4	68	44	0	6	48	1.29
1689169--1689408	82	3.0	81	84	8	328	39	4	10	45	1.58
1697999--1698032	13	2.6	13	95	0	59	41	2	26	29	1.70
1704689--1704736	20	2.4	20	92	0	78	20	12	20	45	1.83
1707425--1707471	24	2.0	23	84	8	60	34	14	12	38	1.85
1725201--1725462	116	2.3	116	83	2	330	26	21	16	35	1.94
1724489--1725639	587	2.0	589	82	2	1445	27	20	13	38	1.91
1728794--1728838	13	3.5	13	79	11	56	31	31	8	28	1.88
1728794--1728851	26	2.2	26	84	6	73	32	27	12	27	1.92
1730927--1731061	72	1.9	71	87	1	198	26	17	18	37	1.92
1734743--1734781	21	1.9	20	89	5	60	35	23	12	28	1.91
1737239--1737271	10	3.4	10	87	8	50	75	15	9	0	1.03
1748247--1748361	61	1.9	61	87	0	167	25	18	26	29	1.98
1752548--1752572	10	2.5	10	100	0	50	20	8	20	52	1.71
1755428--1755506	10	7.8	10	73	16	65	17	2	5	74	1.11
1755414--1755507	17	5.1	18	69	22	61	17	2	5	75	1.08
1756302--1756705	3	137.7	3	91	6	668	0	35	0	64	0.94
1763606--1763646	18	2.2	20	83	12	52	29	2	4	63	1.28
1764697--1764736	18	2.2	18	86	8	55	27	2	0	70	1.01
1764753--1764815	22	2.9	22	85	0	81	41	26	9	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764809--1764903	22	4.3	22	68	4	57	43	36	12	7	1.71
1766204--1766247	23	1.9	23	86	9	63	36	2	6	54	1.40
1768490--1768530	18	2.3	18	86	0	55	29	17	4	48	1.67
1772492--1772615	64	1.9	64	86	0	176	36	6	23	33	1.81
1773343--1773475	20	6.8	20	86	3	180	22	21	20	36	1.96
1773342--1773475	60	2.3	60	86	2	200	23	20	20	35	1.96
1774118--1774145	2	14.0	2	100	0	56	50	0	0	50	1.00
1776963--1777020	13	4.2	13	72	12	53	25	22	24	27	2.00
1780716--1780853	64	2.1	65	82	1	170	26	16	25	31	1.97
1789249--1789428	64	2.8	64	78	7	184	30	16	24	28	1.97
1790183--1791696	55	27.7	55	85	2	1762	24	25	19	30	1.98
1790161--1791696	219	7.0	220	84	2	1799	24	25	19	30	1.98
1792858--1793021	7	21.3	7	77	17	100	4	16	0	79	0.89
1792841--1793018	9	20.6	8	75	19	128	4	16	0	79	0.89
1792841--1793020	18	9.9	17	77	17	141	4	16	0	78	0.90
1792841--1793024	26	6.7	26	73	21	85	4	16	0	78	0.90
1792859--1793002	37	3.8	36	76	16	125	4	15	0	79	0.90
1794193--1794223	15	2.1	15	100	0	62	22	19	12	45	1.84
1802441--1802581	36	3.9	35	74	9	133	27	19	16	36	1.93
1802438--1802581	72	2.0	72	90	2	227	27	19	16	36	1.93
1804439--1804485	24	2.0	25	83	8	62	27	2	2	68	1.13
1808115--1808151	14	2.6	14	100	0	74	37	21	16	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1820149--1820259	47	2.5	46	82	8	122	42	9	16	31	1.81
1821189--1825720	647	7.0	648	99	0	8960	36	15	14	33	1.88
1825778--1825833	23	2.5	23	77	16	64	62	7	8	21	1.48
1834412--1834494	38	2.2	36	78	18	98	55	8	8	27	1.59
1834493--1834567	34	2.2	33	81	11	89	61	14	0	24	1.33
1834631--1834760	55	2.3	55	93	3	226	57	6	1	33	1.35
1834642--1834775	55	2.9	43	70	26	103	55	6	1	36	1.36
1834895--1834932	18	2.2	18	90	4	60	63	2	0	34	1.09
1837229--1837285	28	2.0	28	100	0	114	50	3	10	35	1.54
1838222--1838252	16	1.9	16	93	0	53	41	16	6	35	1.74

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