genome.fa.s9460.2.7.7.80.10.50.1000.9.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: VEPZ01009460.1 Hibiscus syriacus cultivar Beakdansim tig00113722_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2853300

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  9  of  14  ( 1601 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)
1588708--1588788	23	3.5	24	73	20	82	19	24	25	29	1.99
1589335--1589379	21	2.1	22	87	4	65	20	26	28	24	1.99
1590752--1590837	28	3.0	29	66	10	86	31	16	6	45	1.74
1590722--1590837	57	2.0	58	96	1	216	31	13	6	47	1.70
1596775--1596835	24	2.5	24	78	0	68	57	18	11	13	1.65
1596795--1596825	14	2.2	14	94	0	53	54	19	12	12	1.70
1596866--1596914	23	2.1	23	84	0	62	57	18	10	14	1.65
1597086--1597143	24	2.4	24	100	0	116	58	17	8	15	1.61
1597790--1597881	44	2.1	44	97	0	175	40	1	25	33	1.63
1599345--1599469	21	6.1	21	73	12	116	34	26	19	20	1.96
1599345--1599444	40	2.5	39	90	4	146	34	27	19	20	1.96
1599457--1599509	20	2.6	21	84	3	72	37	18	22	20	1.94
1599355--1599509	21	7.6	20	74	7	98	35	23	20	20	1.96
1599545--1599590	19	2.4	19	85	3	56	26	17	30	26	1.97
1599556--1599592	19	1.9	19	94	0	65	27	16	29	27	1.97
1601784--1601822	19	2.1	18	85	4	51	53	10	0	35	1.35
1609357--1609394	17	2.2	18	85	4	51	36	7	2	52	1.45
1609466--1609496	12	2.7	11	90	9	53	64	0	3	32	1.09
1609936--1609978	22	2.0	22	95	0	77	6	51	20	20	1.71
1610009--1610070	31	2.0	31	96	0	115	22	37	16	24	1.94
1627281--1627339	22	2.5	24	86	5	86	54	13	23	8	1.66
1628178--1628225	7	6.9	7	95	0	69	43	35	0	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632879--1632934	15	3.7	15	92	2	85	58	12	21	7	1.57
1638485--1638535	28	1.9	27	84	11	70	37	11	3	47	1.59
1638794--1638857	2	33.5	2	90	9	107	51	0	0	48	1.00
1638794--1638858	23	2.9	23	93	2	114	52	0	0	47	1.00
1638920--1639128	85	2.4	86	86	4	289	31	16	21	30	1.95
1639065--1639185	57	2.1	57	86	6	165	27	19	23	30	1.98
1639631--1639679	4	12.2	4	86	0	62	42	24	8	24	1.81
1639631--1639676	16	2.9	16	96	0	83	41	23	8	26	1.83
1639677--1639742	12	5.5	12	74	0	51	33	46	16	3	1.62
1639711--1639745	18	1.9	18	94	0	61	37	48	14	0	1.44
1640295--1640341	2	24.5	2	91	8	80	51	0	0	48	1.00
1655650--1655784	64	2.1	65	86	4	184	27	19	22	30	1.98
1657725--1657751	6	4.5	6	100	0	54	18	0	29	51	1.46
1658472--1658551	23	3.6	23	72	13	76	28	22	23	25	1.99
1661325--1661367	21	2.0	21	81	0	50	27	30	25	16	1.97
1661918--1661948	2	15.5	2	93	0	53	48	0	3	48	1.17
1662523--1662775	30	8.4	30	98	0	479	23	18	23	33	1.97
1666108--1666150	21	2.0	21	81	0	50	27	30	25	16	1.97
1666173--1666213	20	2.0	20	85	0	55	24	29	31	14	1.95
1667304--1667556	30	8.4	30	97	0	470	23	18	23	33	1.97
1668590--1668718	63	2.1	61	84	7	170	33	19	19	27	1.96
1668593--1668720	31	4.1	31	77	9	134	34	20	17	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1670079--1670124	21	2.2	21	84	7	58	15	23	28	32	1.95
1671456--1671537	41	2.0	41	100	0	164	43	2	31	21	1.66
1673848--1674507	4	166.8	4	93	4	1153	25	0	25	49	1.52
1675908--1675943	18	1.9	19	88	5	56	61	8	0	30	1.26
1675977--1676002	2	13.0	2	100	0	52	50	0	0	50	1.00
1675990--1676095	42	2.5	43	87	1	142	35	9	4	50	1.56
1679593--1679644	23	2.3	21	75	21	52	69	3	0	26	1.06
1679859--1679970	35	3.2	35	85	2	136	42	21	0	34	1.59
1681020--1681132	35	3.2	33	84	9	136	35	0	21	42	1.59
1684489--1684891	83	5.0	81	83	5	471	42	10	4	41	1.60
1684678--1684813	42	3.3	41	62	14	98	44	8	3	43	1.53
1688062--1688219	66	2.4	64	87	6	221	22	20	25	31	1.98
1690847--1690995	23	6.7	23	75	9	139	31	19	24	24	1.98
1690847--1690929	43	1.9	43	92	0	139	32	19	24	24	1.97
1690853--1690995	43	3.2	46	80	6	127	32	20	23	24	1.98
1693958--1694615	330	2.0	330	96	1	1203	33	20	11	34	1.89
1697117--1697184	28	2.4	28	100	0	136	27	19	11	41	1.86
1703840--1703870	2	15.0	2	93	6	53	48	0	3	48	1.17
1703995--1704054	25	2.5	24	80	2	75	41	3	10	45	1.54
1703995--1704047	25	2.1	25	89	0	79	37	1	9	50	1.46
1703896--1704030	39	3.6	36	72	13	121	45	3	7	42	1.49
1704020--1704197	38	4.8	36	72	12	112	39	2	9	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705423--1705465	14	3.0	15	80	10	54	30	0	0	69	0.88
1706620--1706670	25	2.0	25	81	7	59	39	0	5	54	1.24
1715423--1715466	20	2.2	20	83	0	52	47	4	4	43	1.44
1718889--1719001	6	18.8	6	98	0	190	30	50	15	3	1.61
1719003--1719037	10	3.5	10	88	0	52	11	40	40	8	1.72
1720457--1720504	26	1.9	24	87	8	69	31	0	0	68	0.90
1721780--1721831	7	7.4	7	93	0	86	19	0	36	44	1.51
1722429--1722468	12	3.3	12	80	13	55	35	30	10	25	1.88
1722423--1722468	24	1.9	24	100	0	92	36	30	8	23	1.85
1722709--1722750	20	2.1	20	86	0	57	35	7	19	38	1.79
1726491--1726530	21	1.9	21	89	0	62	10	25	40	25	1.86
1726513--1726573	20	2.9	21	87	7	79	18	26	34	21	1.96
1732351--1732380	14	2.1	14	100	0	60	26	16	0	56	1.40
1749565--1749631	19	3.3	19	73	18	53	56	0	0	43	0.99
1749575--1749634	24	2.5	24	86	2	84	61	0	0	38	0.96
1749590--1749651	31	2.0	31	84	6	81	62	1	0	35	1.05
1749590--1749657	32	2.2	31	83	2	82	63	1	0	35	1.04
1752647--1752723	24	3.2	24	75	17	86	29	23	23	23	1.99
1752641--1752736	25	4.0	25	75	17	87	29	25	22	22	1.99
1752843--1752887	24	2.0	22	83	12	56	37	26	15	20	1.92
1753053--1753114	25	2.5	24	82	10	70	41	6	12	38	1.69
1754580--1754627	20	2.5	20	86	10	64	47	4	16	31	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1756442--1756491	21	2.4	21	100	0	100	22	32	22	24	1.98
1759821--1759849	14	2.0	15	93	6	51	48	3	0	48	1.18
1759846--1759887	22	1.9	22	85	9	59	38	2	0	59	1.10
1761167--1761205	21	1.9	21	89	5	62	35	12	23	28	1.91
1773663--1773750	40	2.2	40	93	2	149	48	5	6	38	1.53
1776875--1777163	119	2.4	121	93	1	483	31	9	19	40	1.83
1780164--1780216	21	2.5	21	100	0	106	15	26	24	33	1.95
1780315--1780348	17	2.0	17	94	0	59	38	11	11	38	1.79
1780737--1780776	21	1.9	21	100	0	80	20	35	25	20	1.96
1781469--1781567	33	3.0	32	91	4	153	45	14	7	33	1.71
1781562--1781603	21	2.0	21	95	0	75	47	7	14	30	1.71
1788940--1789027	24	3.7	24	76	3	79	17	14	15	52	1.75
1788941--1789012	34	2.1	34	86	0	99	16	13	16	52	1.74
1789202--1789249	23	2.1	23	84	7	62	14	8	16	60	1.57
1789912--1789937	3	8.7	3	100	0	52	30	0	0	69	0.89
1792940--1792996	24	2.4	24	93	0	96	22	19	29	28	1.98
1793346--1793373	2	14.0	2	100	0	56	50	0	0	50	1.00
1802013--1802087	23	3.2	22	80	10	78	12	9	21	57	1.62
1802050--1802132	10	7.6	10	76	17	76	12	10	19	57	1.63
1802056--1802132	23	3.4	23	82	8	79	12	11	18	57	1.65
1802008--1802122	47	2.4	47	78	5	124	12	12	19	56	1.66
1802716--1802774	3	19.7	3	100	0	118	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1803754--1803825	20	3.6	20	86	0	90	29	27	11	31	1.91
1820475--1820529	6	9.7	6	82	9	62	0	20	1	78	0.85
1820470--1820504	16	2.2	16	95	5	63	0	11	5	82	0.82
1820870--1821004	60	2.2	60	81	5	148	32	20	5	41	1.76
1820997--1821034	18	2.1	18	95	0	67	31	23	5	39	1.77
1825360--1825401	2	21.0	2	100	0	84	50	0	0	50	1.00
1825908--1826314	106	3.9	104	80	12	465	24	19	22	33	1.97
1825908--1826314	216	1.9	205	88	5	598	24	19	22	33	1.97
1830357--1830439	33	2.5	33	88	5	123	30	9	20	39	1.84
1830496--1830566	5	13.8	5	88	8	56	69	0	1	29	0.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14