genome.fa.s8041.2.7.7.80.10.50.1000.7.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  7  of  21  ( 2430 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)
1610082--1610124	23	1.9	22	85	4	59	51	0	0	48	1.00
1618111--1618141	9	3.4	9	95	0	53	22	16	0	61	1.34
1621653--1621699	11	4.6	10	77	12	51	76	0	10	12	1.02
1624056--1624247	54	3.6	54	92	0	303	38	13	21	27	1.90
1624570--1624631	22	2.8	23	90	7	94	37	12	14	35	1.85
1625050--1625474	121	3.6	121	79	11	545	39	13	18	28	1.88
1624900--1625474	113	5.0	111	77	11	505	39	14	17	28	1.89
1624919--1625474	234	2.4	234	92	1	918	39	14	17	28	1.89
1625284--1625347	20	3.2	20	63	20	53	42	9	23	25	1.84
1625833--1625903	3	23.0	3	77	5	70	33	1	0	64	1.02
1627060--1627094	16	2.1	17	89	5	54	34	5	0	60	1.21
1627121--1627184	8	7.6	9	75	19	66	31	0	0	68	0.90
1627121--1627184	3	22.7	3	78	15	66	31	0	0	68	0.90
1627113--1627184	11	6.4	11	77	22	78	29	0	1	69	0.97
1627355--1627398	23	1.9	23	85	0	61	52	0	0	47	1.00
1628375--1628405	9	3.4	9	95	0	53	22	16	0	61	1.34
1633805--1633867	22	2.9	22	83	2	74	36	14	9	39	1.78
1634116--1634646	113	4.6	114	83	6	639	37	14	19	28	1.91
1634437--1634717	122	2.3	122	92	1	458	39	14	19	26	1.90
1638240--1638281	19	2.3	19	87	4	59	19	33	26	21	1.97
1638263--1638313	23	2.3	23	93	3	86	21	23	35	19	1.96
1638263--1638329	23	2.9	23	82	8	75	19	25	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644660--1644742	3	28.0	3	95	2	87	33	9	0	56	1.32
1644852--1644897	24	1.9	24	95	0	83	26	32	17	23	1.97
1646972--1647009	18	2.1	18	95	0	67	34	26	10	28	1.90
1647168--1648888	4	432.0	4	92	1	2692	24	3	25	46	1.69
1652305--1652474	35	4.9	35	84	5	193	35	19	24	20	1.96
1652305--1652474	71	2.4	69	86	1	214	35	19	24	20	1.96
1656580--1656686	28	3.8	28	89	0	169	16	19	27	36	1.93
1660519--1660570	23	2.3	22	81	12	61	44	19	15	21	1.87
1660515--1660561	23	2.0	24	88	12	71	42	23	17	17	1.88
1665874--1665918	3	15.3	3	86	13	67	66	0	0	33	0.92
1665875--1665918	16	2.7	17	89	10	74	68	0	0	31	0.90
1665874--1665928	26	2.0	26	89	6	83	63	0	0	36	0.95
1666146--1666807	114	5.8	114	93	2	1064	28	19	12	38	1.89
1666613--1666657	23	1.9	23	82	13	56	15	26	6	51	1.68
1667598--1668284	83	8.3	83	97	0	1311	37	21	13	27	1.91
1668889--1668925	16	2.3	17	86	13	60	51	5	10	32	1.60
1669245--1669295	6	8.0	6	76	20	50	1	17	0	80	0.81
1669245--1669298	15	4.0	14	90	7	69	1	18	0	79	0.82
1669247--1669299	12	4.2	12	88	11	63	1	16	0	81	0.79
1669245--1669296	21	2.7	18	83	16	61	1	17	0	80	0.80
1669246--1669296	16	3.1	16	75	13	50	1	15	0	82	0.76
1669262--1669310	23	2.1	24	88	3	73	2	16	0	81	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682635--1682677	21	2.0	21	86	0	59	37	25	13	23	1.92
1684242--1684325	29	2.8	30	77	12	84	39	11	3	45	1.58
1697237--1697377	36	3.9	36	88	0	201	28	37	4	29	1.76
1697824--1697870	14	3.1	15	75	12	51	72	6	19	2	1.17
1701343--1701483	36	3.9	36	86	0	192	27	36	4	31	1.78
1701343--1701483	72	2.0	72	91	0	228	27	36	4	31	1.78
1714573--1714612	21	1.9	21	89	0	62	25	0	5	70	1.08
1716247--1716318	29	2.5	30	78	12	89	30	0	2	66	1.06
1718266--1718295	14	2.2	14	94	5	53	20	0	6	73	1.05
1718266--1718299	15	2.4	15	90	9	54	20	0	5	73	1.04
1720300--1720358	17	3.4	18	79	11	79	23	25	18	32	1.97
1720295--1720347	16	3.2	16	79	10	70	22	22	22	32	1.98
1724496--1724544	17	3.1	17	70	27	52	71	0	24	4	1.03
1727200--1727265	31	2.1	35	81	16	81	45	3	0	51	1.16
1727326--1727393	29	2.3	31	85	7	88	50	1	0	48	1.10
1727448--1727524	30	2.5	30	77	10	84	44	1	1	53	1.17
1728924--1728986	30	2.1	29	88	11	92	30	19	9	41	1.83
1738912--1739386	235	2.0	235	98	0	923	31	26	12	29	1.93
1744147--1744206	22	2.9	21	76	13	61	31	16	25	26	1.96
1743985--1744206	94	2.3	94	80	4	250	31	14	23	29	1.95
1744578--1744889	79	3.9	79	84	2	394	34	12	21	31	1.91
1744860--1745121	45	5.8	45	82	6	307	41	9	20	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744860--1745121	89	2.9	89	82	7	307	41	9	20	28	1.84
1744860--1745110	134	1.9	136	84	5	348	40	9	20	29	1.84
1745583--1745740	80	2.0	80	87	5	230	39	10	22	27	1.86
1750218--1750271	20	2.7	20	94	0	90	31	16	24	27	1.96
1750397--1750455	21	2.7	22	71	19	52	30	20	25	23	1.98
1750839--1750976	45	3.3	44	67	27	129	30	10	28	31	1.90
1750824--1751135	79	4.0	79	88	1	439	35	9	23	30	1.88
1750824--1751144	156	2.0	157	87	1	455	36	9	23	29	1.87
1751069--1751368	45	6.7	45	84	3	246	41	10	20	28	1.84
1751069--1751368	90	3.3	91	84	2	374	41	10	20	28	1.84
1751069--1751372	135	2.3	135	83	4	364	41	9	20	28	1.84
1751837--1751989	81	1.9	81	84	0	207	38	9	22	30	1.85
1753958--1753993	18	2.0	18	88	0	54	30	16	0	52	1.44
1755197--1755234	18	2.1	18	90	0	58	13	15	50	21	1.78
1755212--1755247	13	2.8	13	95	0	63	16	13	52	16	1.74
1755197--1755249	18	3.2	17	72	25	51	15	15	50	18	1.77
1756812--1756847	18	2.0	18	88	0	54	30	16	0	52	1.44
1760190--1760224	18	1.9	18	88	0	52	28	17	0	54	1.43
1761548--1761599	18	2.8	19	88	8	81	11	19	48	21	1.80
1766553--1766874	83	4.0	82	84	6	392	41	5	10	42	1.62
1769169--1769211	13	3.6	12	84	12	54	9	13	0	76	1.01
1769802--1769838	7	4.8	8	87	12	51	18	2	0	78	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769802--1769838	4	9.5	4	83	16	51	18	2	0	78	0.87
1769801--1769838	20	2.0	18	90	10	58	18	2	0	78	0.86
1769811--1769838	11	2.5	11	100	0	56	17	0	0	82	0.68
1771387--1771473	31	2.8	31	83	1	102	45	11	19	22	1.82
1772984--1773052	28	2.4	28	85	7	86	52	4	2	40	1.36
1773009--1773176	74	2.3	75	80	15	199	45	3	6	44	1.47
1773099--1773128	14	2.1	14	93	0	51	40	6	6	46	1.56
1773048--1773172	38	3.3	37	79	15	130	42	4	8	45	1.52
1773167--1773212	20	2.3	20	84	0	56	47	0	6	45	1.28
1773249--1773326	12	6.8	11	80	17	61	29	1	2	66	1.13
1773247--1773326	38	2.1	38	82	17	96	30	1	2	66	1.13
1773247--1773327	31	2.5	31	84	11	92	29	1	2	66	1.12
1773247--1773326	19	4.2	20	81	15	75	30	1	2	66	1.13
1774442--1774491	22	2.3	22	82	0	64	26	4	0	70	1.05
1780747--1780780	13	2.6	13	85	0	50	38	5	17	38	1.74
1781248--1781356	44	2.5	44	81	8	125	24	19	25	30	1.98
1787025--1787081	27	2.2	26	90	3	87	22	19	28	29	1.98
1788702--1789063	180	2.0	181	97	2	685	25	15	11	47	1.78
1794192--1794236	24	1.9	23	86	4	63	44	2	2	51	1.26
1794221--1794254	16	2.1	17	88	5	52	44	0	5	50	1.26
1794271--1794329	23	2.5	24	88	2	84	33	0	1	64	1.04
1794260--1794328	7	9.6	7	75	20	54	34	0	1	63	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1798225--1798254	6	5.0	6	95	0	51	0	20	0	80	0.72
1807913--1807963	20	2.5	20	96	3	93	21	37	25	15	1.93
1807999--1808079	21	3.8	21	82	12	94	19	37	28	14	1.92
1809566--1809613	19	2.5	20	82	3	62	52	6	12	29	1.63
1809176--1809599	211	2.0	213	94	3	748	37	12	16	32	1.87
1811006--1811047	21	2.0	21	95	0	75	19	38	26	16	1.92
1811083--1811164	21	3.8	21	91	4	110	19	39	28	13	1.89
1811082--1811164	43	1.9	43	90	0	130	20	38	27	13	1.90
1812260--1812693	218	2.0	218	97	0	823	38	12	16	32	1.86
1812660--1812707	19	2.5	20	82	3	62	52	6	12	29	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21