genome.fa.s8105.2.7.7.80.10.50.1000.9.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  9  of  30  ( 3521 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)
1573630--1573703	11	6.1	11	81	18	85	37	0	0	62	0.96
1573644--1573694	15	3.7	15	73	24	58	35	0	0	64	0.94
1574640--1574684	21	2.1	21	87	0	63	42	8	0	48	1.34
1576104--1576290	71	2.6	71	91	1	286	25	19	15	40	1.90
1577187--1577267	40	2.0	40	90	2	128	19	13	11	55	1.68
1587082--1587127	22	2.1	22	88	4	67	50	0	0	50	1.00
1588164--1588213	22	2.2	23	85	3	66	16	16	14	54	1.72
1589218--1589333	20	5.8	20	68	17	71	34	24	17	24	1.96
1589363--1589421	22	2.7	22	82	12	86	30	27	11	30	1.92
1589956--1590067	20	5.7	20	73	12	70	25	16	24	33	1.96
1594132--1594167	18	1.9	19	88	5	56	30	2	0	66	1.06
1598307--1598576	80	3.4	80	79	11	252	29	17	15	37	1.91
1604601--1604674	30	2.4	30	90	2	112	29	9	6	54	1.58
1606304--1606499	86	2.3	86	84	5	247	39	14	13	31	1.86
1612118--1612142	2	12.5	2	100	0	50	52	0	0	48	1.00
1615187--1615227	20	2.0	20	85	4	55	58	7	9	24	1.55
1624935--1625080	2	81.0	2	72	22	101	42	0	0	56	1.04
1624961--1625059	34	2.9	34	95	1	180	40	0	1	58	1.05
1624951--1625089	43	3.4	43	79	18	161	41	0	0	57	1.04
1625964--1626110	60	2.4	59	82	8	181	35	19	13	31	1.91
1629668--1629830	37	4.4	38	81	6	183	44	5	5	44	1.50
1629668--1629830	75	2.2	74	81	5	186	44	5	5	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630228--1630316	25	3.4	25	76	14	83	44	5	0	49	1.25
1630239--1630314	24	3.0	24	74	14	73	44	5	0	50	1.24
1630241--1630322	27	3.2	26	80	11	91	43	4	0	51	1.23
1630463--1630527	31	2.1	31	94	2	114	50	13	9	26	1.71
1633943--1634245	159	1.9	160	87	2	448	36	7	10	44	1.68
1634188--1634228	21	1.9	21	85	5	55	39	4	0	56	1.21
1644383--1644429	12	3.9	12	78	10	51	27	40	14	17	1.89
1644384--1644429	24	1.9	24	95	0	83	28	41	13	17	1.86
1645591--1645726	60	2.3	59	80	3	148	33	14	19	32	1.92
1646761--1646796	18	2.1	18	89	5	56	50	0	0	50	1.00
1646801--1646842	20	2.0	22	90	9	70	71	2	0	26	0.98
1648935--1648973	20	2.0	20	89	0	60	64	12	17	5	1.46
1649643--1649683	22	1.9	21	90	5	64	24	0	4	70	1.06
1650515--1650539	12	2.1	12	100	0	50	16	8	44	32	1.76
1655202--1655378	70	2.5	71	85	2	239	34	24	13	27	1.93
1655363--1655420	21	2.7	22	84	5	75	39	22	15	22	1.91
1657610--1657686	28	2.8	28	85	0	100	23	19	24	32	1.97
1657616--1657694	28	2.8	28	82	3	97	24	21	24	30	1.99
1662465--1662518	26	2.1	26	96	0	99	40	16	0	42	1.48
1667236--1667429	51	3.8	51	81	3	230	24	12	15	46	1.81
1667582--1667617	17	2.1	18	89	5	56	33	19	22	25	1.97
1670017--1670063	24	2.0	24	82	0	58	14	12	12	59	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1671000--1671058	3	20.0	3	76	10	59	28	3	5	62	1.32
1671017--1671058	15	2.8	15	86	13	68	30	2	4	61	1.29
1673585--1673647	28	2.2	28	100	0	126	17	14	20	47	1.82
1673973--1674164	70	2.7	72	83	3	262	22	9	23	43	1.82
1675160--1675184	8	3.1	8	100	0	50	28	0	36	36	1.58
1675549--1675573	13	1.9	13	100	0	50	20	16	16	48	1.82
1677951--1677990	21	1.9	21	94	0	71	30	15	7	47	1.72
1677985--1678083	33	3.0	33	94	1	164	32	7	15	45	1.73
1678069--1678123	13	4.2	13	75	13	58	34	3	12	49	1.59
1678319--1678375	21	2.7	21	91	0	96	19	26	26	28	1.99
1678542--1678597	15	3.6	15	79	9	67	32	12	12	42	1.80
1678561--1678594	18	1.9	18	94	5	61	38	11	11	38	1.79
1678689--1678734	21	2.5	17	75	24	56	45	26	21	6	1.76
1678694--1678746	22	2.5	22	96	3	99	35	28	26	9	1.87
1678902--1678984	42	2.0	42	92	0	139	26	15	24	33	1.95
1679730--1679755	10	2.6	10	100	0	52	84	0	0	15	0.62
1680947--1680999	17	2.9	18	83	13	65	75	0	0	24	0.80
1680946--1680999	4	14.8	4	88	11	73	75	0	0	24	0.80
1681926--1682773	106	8.0	106	91	1	1337	22	18	25	33	1.97
1686547--1686595	9	5.2	9	80	9	62	81	0	0	18	0.69
1686551--1686590	21	2.0	20	90	5	62	77	0	0	22	0.77
1697109--1697154	24	1.9	23	82	8	56	30	0	6	63	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1700309--1700341	16	2.0	17	94	5	59	66	0	3	30	1.06
1715737--1715790	22	2.5	22	84	0	81	38	11	14	35	1.82
1716233--1716280	21	2.3	21	92	0	78	45	0	4	50	1.21
1722824--1722869	20	2.3	20	96	0	83	30	2	23	43	1.66
1731912--1731999	29	3.0	28	85	6	113	35	23	7	32	1.84
1732017--1732053	18	2.1	18	100	0	74	10	21	51	16	1.74
1739122--1739235	29	3.9	29	87	2	149	36	22	6	34	1.79
1745800--1746100	159	1.9	159	99	0	595	48	3	2	45	1.32
1750919--1750977	31	1.9	31	92	0	100	42	1	11	44	1.51
1751481--1751551	31	2.3	31	83	9	101	36	16	8	38	1.80
1759731--1759768	20	1.9	20	88	0	58	65	0	7	26	1.19
1761323--1761384	33	1.9	32	83	6	81	30	4	14	50	1.64
1765727--1766364	316	2.0	316	90	0	1008	27	15	18	39	1.90
1768535--1768564	2	15.0	2	100	0	60	0	50	0	50	1.00
1771778--1771853	37	2.1	37	82	5	91	23	10	31	34	1.89
1772760--1772801	21	2.0	21	100	0	84	33	38	19	9	1.84
1779542--1779639	39	2.5	39	83	3	117	37	25	15	21	1.92
1779564--1779652	39	2.3	39	88	0	133	38	22	20	19	1.94
1780717--1780822	30	3.6	29	82	5	104	58	11	12	17	1.62
1780687--1780834	60	2.5	60	77	4	147	58	10	11	18	1.61
1782260--1782302	3	15.0	3	80	9	54	65	0	0	34	0.93
1782260--1782302	20	2.2	20	91	0	68	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)
1782351--1782519	39	4.4	39	87	0	232	39	25	14	20	1.91
1782501--1782537	18	2.1	18	94	0	65	40	29	16	13	1.86
1782462--1782576	57	2.0	57	91	0	185	39	26	16	18	1.91
1782519--1782654	39	3.5	39	82	4	175	38	24	16	20	1.92
1782428--1782615	96	2.0	96	88	0	277	39	24	15	20	1.91
1782384--1782917	135	4.0	135	94	0	892	38	23	16	20	1.92
1782558--1782750	96	2.0	96	83	4	246	38	24	16	21	1.93
1782636--1782672	18	2.1	18	94	0	65	40	29	16	13	1.86
1782602--1782711	57	1.9	57	88	3	168	40	24	15	20	1.91
1782363--1782789	174	2.5	174	83	6	526	38	24	15	21	1.92
1782654--1782789	39	3.5	39	82	6	168	38	23	16	21	1.92
1782693--1782880	96	2.0	96	83	2	243	38	23	16	20	1.92
1782771--1782807	18	2.1	18	94	0	65	40	29	16	13	1.86
1782737--1782846	57	1.9	57	90	0	175	40	25	15	19	1.90
1782789--1783033	39	6.4	39	81	6	266	40	22	16	20	1.91
1782789--1783061	39	7.0	39	80	5	257	39	23	16	21	1.92
1782789--1783061	77	3.5	78	78	6	284	39	23	16	21	1.92
1788364--1788414	3	17.0	3	100	0	102	66	0	0	33	0.92
1793173--1793385	65	3.3	65	83	5	245	30	25	16	27	1.97
1799870--1799929	21	2.9	21	75	5	59	23	40	6	30	1.80
1800729--1800772	21	2.1	21	91	0	70	6	36	15	40	1.74
1807333--1807368	16	2.2	16	90	0	54	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808276--1808761	112	4.4	112	87	2	671	30	15	23	31	1.95
1809951--1810024	5	14.4	5	77	13	71	6	16	0	77	0.98
1814686--1814711	2	13.0	2	100	0	52	50	0	0	50	1.00
1820267--1820333	27	2.5	26	79	11	73	49	0	5	44	1.27
1820492--1820535	20	2.3	19	81	11	54	22	25	6	45	1.77
1830833--1830878	20	2.3	20	85	3	58	6	23	2	67	1.25
1835152--1835186	18	1.9	18	88	0	52	17	11	51	20	1.75
1841687--1841739	20	2.7	20	93	0	88	33	37	7	20	1.81
1849449--1849517	3	23.0	3	85	5	95	0	30	1	68	0.99
1857800--1858165	183	2.0	183	99	0	723	32	18	12	36	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30