genome.fa.s1836.2.7.7.80.10.50.1000.8.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: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2428596

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

This is table  8  of  12  ( 1328 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)
1546669--1546738	31	2.3	31	89	0	113	42	17	7	32	1.76
1557037--1557427	183	2.1	187	90	3	623	43	3	7	45	1.48
1558090--1558120	16	1.9	16	93	0	53	54	3	0	41	1.16
1560783--1560938	77	2.0	76	91	1	249	28	27	14	30	1.95
1563257--1563345	41	2.2	41	100	0	178	26	15	22	34	1.94
1568246--1568295	16	3.2	15	80	8	55	32	0	2	66	1.03
1569690--1569756	34	2.0	34	100	0	134	35	17	16	29	1.92
1573050--1573145	41	2.3	40	83	3	111	32	19	19	28	1.97
1582218--1582259	2	21.0	2	100	0	84	50	0	0	50	1.00
1582803--1582865	11	5.9	11	71	14	51	55	3	1	39	1.25
1583010--1583168	78	2.0	78	100	0	318	45	16	10	28	1.79
1583493--1583554	14	4.4	14	72	11	56	48	29	0	22	1.51
1583493--1583554	28	2.2	28	80	5	72	48	29	0	22	1.51
1583427--1583554	42	3.0	42	76	10	104	47	26	1	24	1.61
1584203--1584236	16	2.2	16	89	5	52	26	0	17	55	1.42
1584273--1584328	26	2.2	26	87	6	78	28	0	16	55	1.41
1584289--1584342	26	2.1	25	83	10	65	33	0	12	53	1.39
1594640--1594849	95	2.2	95	82	2	260	38	15	14	31	1.88
1606013--1606353	43	8.2	42	80	9	328	31	19	23	25	1.98
1606013--1606353	87	4.1	87	78	13	342	31	19	23	25	1.98
1606211--1606273	32	2.0	32	90	6	101	33	19	25	22	1.97
1606243--1606353	42	2.6	42	91	0	177	29	19	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606175--1606316	74	1.9	75	88	1	214	33	18	23	24	1.96
1610503--1610865	42	8.8	41	72	8	238	35	17	15	31	1.91
1610528--1610864	82	4.1	82	73	8	199	35	18	15	30	1.92
1610503--1610866	123	3.0	124	79	6	375	35	17	15	31	1.91
1619213--1619299	45	1.9	46	83	6	115	40	4	17	37	1.70
1619220--1619291	30	2.4	30	81	4	83	38	4	16	40	1.68
1619213--1619311	45	2.2	46	80	10	114	40	6	17	36	1.74
1619430--1619503	24	3.0	25	80	4	87	21	21	24	32	1.98
1620656--1620719	11	5.6	11	77	14	67	28	21	26	23	1.99
1620664--1620720	12	4.9	12	76	19	59	29	22	26	21	1.99
1620656--1620720	23	2.8	23	88	9	105	27	23	26	23	2.00
1620939--1620983	16	2.8	16	96	0	81	8	11	22	57	1.60
1625963--1626092	2	65.5	2	98	1	253	50	0	0	50	1.00
1626944--1627004	24	2.6	23	84	7	70	63	1	3	31	1.20
1633885--1634053	84	2.0	84	98	0	329	37	17	15	29	1.91
1634881--1634928	21	2.3	21	92	0	78	33	20	14	31	1.93
1635875--1635972	47	2.1	46	84	7	126	26	22	23	27	1.99
1641969--1642002	9	3.9	9	84	7	52	61	0	0	38	0.96
1641955--1642002	17	2.9	16	90	3	69	62	0	2	35	1.07
1643075--1643145	23	3.2	23	63	25	62	21	9	7	61	1.50
1643074--1643159	43	2.0	43	100	0	172	18	11	6	62	1.50
1644263--1644520	114	2.2	115	78	8	265	37	6	13	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648095--1648119	3	8.3	3	100	0	50	0	0	32	68	0.90
1650518--1650559	2	21.0	2	100	0	84	50	0	0	50	1.00
1654239--1654271	17	1.9	17	93	0	57	51	3	0	45	1.16
1655326--1655385	23	2.6	23	83	0	75	41	10	16	31	1.81
1655221--1655393	87	2.0	87	88	0	256	41	10	13	34	1.79
1655909--1655954	24	1.9	24	91	8	76	54	4	0	41	1.20
1655971--1656406	200	2.2	198	83	4	547	30	14	13	40	1.85
1656512--1656596	30	2.8	31	80	15	83	48	1	1	49	1.16
1656623--1656691	24	2.9	24	77	18	65	43	1	4	50	1.30
1656814--1656854	21	2.0	21	85	0	55	41	17	0	41	1.49
1658027--1658084	10	5.6	10	76	8	53	20	6	5	67	1.34
1658027--1658084	21	2.8	21	76	5	64	20	6	5	67	1.34
1659602--1659655	28	1.9	28	88	7	83	50	3	16	29	1.63
1661179--1661232	19	2.8	20	80	2	74	22	18	33	25	1.97
1665425--1665481	24	2.4	24	96	0	105	28	21	14	36	1.92
1669008--1669164	60	2.6	60	84	2	190	20	30	18	30	1.96
1669290--1669331	22	1.9	22	85	0	57	52	4	2	40	1.35
1670154--1670186	16	2.0	17	88	5	50	36	0	9	54	1.32
1670189--1670215	7	3.9	7	100	0	54	14	0	14	70	1.17
1681116--1681180	27	2.4	28	92	7	109	32	27	7	32	1.85
1686057--1686084	3	9.3	3	100	0	56	0	32	0	67	0.91
1692861--1693588	90	8.1	90	92	0	1181	25	17	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693632--1693732	36	2.8	36	80	6	114	28	16	10	43	1.82
1693756--1693907	36	4.4	36	71	9	118	30	16	12	40	1.86
1693782--1694054	67	4.1	67	76	11	247	30	18	12	38	1.88
1693782--1694046	66	4.0	65	74	11	207	30	18	12	38	1.88
1694444--1694865	91	4.6	91	91	0	637	36	16	23	23	1.94
1695155--1695200	21	2.1	22	92	4	76	34	13	2	50	1.53
1697191--1697269	29	2.8	28	78	5	70	31	5	1	62	1.25
1697349--1697429	33	2.4	35	82	12	98	29	1	3	65	1.17
1697360--1697429	17	4.1	17	77	15	72	31	1	2	64	1.17
1697418--1697508	22	4.2	22	76	13	82	29	4	0	65	1.11
1697442--1697508	14	4.8	14	74	17	59	28	2	0	68	1.04
1697418--1697507	44	2.1	43	81	10	103	28	4	0	66	1.11
1697593--1697648	19	2.9	19	75	19	62	25	8	0	66	1.21
1701931--1701972	11	3.4	12	80	12	50	83	7	9	0	0.81
1701923--1701972	25	2.1	23	92	7	82	84	8	8	0	0.79
1701923--1701995	21	3.2	21	80	9	74	79	8	10	1	0.99
1703581--1704644	106	10.0	106	90	0	1567	34	24	17	23	1.96
1705395--1705498	37	2.8	37	85	0	127	40	15	12	31	1.84
1706157--1706275	22	5.4	22	73	15	86	30	5	0	64	1.15
1706209--1706275	14	4.8	14	74	17	59	28	2	0	68	1.04
1706185--1706274	44	2.1	43	81	10	103	28	4	0	66	1.11
1706360--1706415	19	2.9	19	75	19	62	23	8	1	66	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711476--1711534	3	19.0	3	86	6	82	62	0	0	37	0.95
1711873--1713450	113	14.0	113	95	1	2724	28	17	15	39	1.90
1713825--1713879	22	2.5	22	93	0	101	40	14	10	34	1.81
1714251--1714451	54	3.8	53	82	6	223	24	21	14	38	1.92
1714251--1714451	104	1.9	104	84	6	269	24	21	14	38	1.92
1715545--1715618	35	2.1	34	80	9	78	32	21	13	32	1.92
1716572--1716912	114	3.0	114	93	0	565	30	20	15	33	1.94
1719168--1719287	7	15.4	7	76	19	82	3	16	1	78	0.97
1719175--1719259	17	4.9	17	74	21	70	3	17	0	78	0.88
1719181--1719285	46	2.3	47	80	13	114	3	17	1	77	1.01
1719245--1719294	27	1.9	25	95	4	82	2	18	6	74	1.12
1722566--1722619	14	3.8	14	85	2	63	51	9	14	24	1.71
1726378--1726431	3	18.0	3	88	7	83	66	0	0	33	0.92
1726384--1726438	9	6.1	9	87	6	58	70	0	0	29	0.87
1728259--1728293	16	2.1	18	89	10	56	65	0	8	25	1.21
1728304--1728341	20	1.9	20	88	0	58	63	2	7	26	1.35
1728830--1728918	37	2.4	37	82	0	97	31	13	12	42	1.81
1729477--1730138	105	6.3	105	89	3	922	22	18	26	33	1.96
1730307--1730382	36	2.1	36	90	0	116	40	14	21	23	1.90
1730282--1730600	106	3.1	104	90	4	479	36	11	20	31	1.88
1730717--1730830	36	3.2	36	74	2	122	45	13	15	25	1.82
1730671--1730846	72	2.4	74	84	7	216	43	12	17	26	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730732--1730843	36	3.1	35	72	12	111	45	9	16	27	1.79
1731964--1732500	183	2.9	183	95	0	959	31	21	20	26	1.98
1737913--1737947	16	2.1	18	89	10	56	65	0	8	25	1.21
1737925--1737967	22	2.0	20	86	8	59	67	0	6	25	1.15
1737952--1737996	20	2.4	19	85	7	56	64	2	8	24	1.34
1737959--1737996	20	1.9	20	88	0	58	63	2	7	26	1.35
1738058--1738086	2	14.5	2	100	0	58	51	0	0	48	1.00
1738501--1738605	37	2.8	37	83	0	129	29	14	13	42	1.83
1741009--1741134	31	4.0	31	76	7	121	33	20	18	27	1.96
1741073--1741134	32	1.9	32	90	0	97	30	20	19	29	1.97

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