genome.fa.s8082.2.7.7.80.10.50.1000.9.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  9  of  28  ( 3312 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)
1575004--1575046	21	2.0	21	82	8	52	32	37	11	18	1.87
1575227--1575281	21	2.6	21	91	0	92	12	12	40	34	1.82
1576843--1576902	20	2.8	20	90	7	84	11	18	18	51	1.75
1577421--1577576	20	7.8	20	73	13	124	20	17	19	42	1.90
1577421--1577582	60	2.7	60	89	0	225	20	16	19	42	1.89
1578552--1578639	6	15.0	6	91	4	126	37	0	12	50	1.41
1579988--1580046	31	1.9	31	92	0	100	40	6	10	42	1.65
1580061--1580917	54	15.4	54	83	11	979	52	11	0	36	1.39
1580093--1580917	32	29.4	32	74	24	800	52	11	0	36	1.40
1580061--1580818	86	9.0	85	84	10	1033	52	11	0	36	1.38
1580157--1580199	22	2.0	22	100	0	86	51	13	0	34	1.42
1580159--1580207	22	2.2	22	88	3	71	55	14	0	30	1.40
1580242--1580285	22	2.0	22	95	0	79	50	11	0	38	1.39
1580245--1580293	22	2.2	22	85	3	62	55	12	0	32	1.37
1580297--1580339	22	2.0	22	95	0	77	51	11	0	37	1.39
1580299--1580347	22	2.2	22	85	3	62	55	12	0	32	1.37
1580414--1580457	22	2.0	22	95	0	79	50	11	0	38	1.39
1580417--1580465	22	2.2	22	85	3	62	55	12	0	32	1.37
1580469--1580511	22	2.0	22	95	0	77	51	11	0	37	1.39
1580471--1580519	22	2.2	22	85	3	62	55	12	0	32	1.37
1580525--1580573	22	2.2	22	85	3	62	55	12	0	32	1.37
1580579--1580627	22	2.2	22	85	3	62	55	12	0	32	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1580663--1580705	22	2.0	22	95	0	77	51	11	0	37	1.39
1580665--1580713	22	2.2	22	85	3	62	55	12	0	32	1.37
1580713--1580894	22	7.0	24	72	25	133	51	13	0	34	1.45
1580897--1580992	15	6.0	15	78	16	86	48	3	0	47	1.17
1580843--1580992	69	2.2	67	84	5	187	49	7	0	42	1.35
1580653--1580984	54	6.5	49	78	12	210	51	10	0	38	1.39
1580906--1581013	30	3.2	33	76	12	114	47	3	0	49	1.19
1580910--1581009	15	5.9	18	77	18	58	48	4	0	48	1.20
1589568--1589652	3	28.0	3	80	2	80	40	0	2	57	1.11
1589765--1589805	20	2.0	20	95	0	73	24	43	14	17	1.86
1591173--1591213	17	2.3	18	87	8	57	36	0	2	60	1.10
1593297--1593335	19	2.0	21	90	10	64	17	10	12	58	1.61
1595873--1595906	13	2.6	14	86	13	54	82	0	17	0	0.67
1597872--1598202	93	3.6	93	96	0	601	28	13	22	36	1.91
1597872--1598247	93	4.1	93	93	2	598	28	13	21	36	1.91
1600381--1600434	28	2.1	25	86	13	74	25	24	14	35	1.94
1601205--1601769	113	4.8	113	87	4	702	40	15	17	26	1.89
1601750--1601783	14	2.4	14	100	0	68	52	5	17	23	1.66
1601747--1601785	14	2.5	17	76	24	57	56	5	17	20	1.60
1602201--1603436	76	16.5	76	94	1	2090	21	21	21	35	1.96
1603561--1603633	3	24.0	3	83	2	74	38	0	2	58	1.12
1609067--1609169	51	2.0	51	83	3	127	19	31	31	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609419--1609452	17	1.9	18	88	5	52	29	2	2	64	1.22
1609419--1609491	29	2.5	31	85	10	102	32	1	1	64	1.11
1616257--1616930	182	3.7	179	85	4	716	41	13	16	27	1.86
1616269--1616930	364	1.8	364	81	3	821	41	13	16	27	1.86
1618895--1618945	20	2.6	19	82	14	59	50	0	3	45	1.20
1619374--1619504	65	2.0	66	83	1	165	29	2	45	23	1.65
1619584--1619621	18	2.2	17	86	9	51	63	0	15	21	1.31
1621166--1621213	19	2.5	19	93	0	78	29	2	12	56	1.48
1621166--1621225	19	3.2	19	88	2	68	31	1	13	53	1.50
1623523--1623567	24	1.9	23	90	4	72	31	2	15	51	1.56
1623535--1623571	18	2.1	18	89	0	56	32	5	10	51	1.60
1623527--1623579	24	2.2	24	86	0	70	35	3	13	47	1.61
1625113--1625870	199	3.8	199	88	3	1019	38	12	15	32	1.86
1628309--1628359	23	2.2	23	89	0	75	31	21	9	37	1.86
1628319--1628368	23	2.2	23	92	0	82	32	18	12	38	1.87
1628305--1628467	86	1.9	86	89	0	254	30	14	11	43	1.81
1635416--1635461	24	1.9	24	90	0	74	13	15	21	50	1.78
1635428--1635468	14	2.9	14	85	0	55	12	12	19	56	1.67
1636562--1636625	10	6.6	10	71	20	55	7	10	23	57	1.58
1636551--1636587	16	2.3	16	90	0	56	8	10	21	59	1.56
1636561--1636611	22	2.3	22	93	0	84	5	11	25	56	1.57
1636583--1636621	16	2.4	16	100	0	78	5	12	25	56	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636691--1636723	16	2.1	16	100	0	66	6	12	24	57	1.57
1637940--1638011	30	2.3	32	83	4	85	44	8	6	40	1.61
1638378--1638423	22	2.1	21	84	4	56	69	8	2	19	1.25
1645268--1645310	13	3.2	14	80	9	54	67	2	13	16	1.33
1647073--1647126	6	9.0	6	100	0	108	16	16	16	50	1.79
1651336--1651383	16	2.8	18	75	9	55	35	8	2	54	1.42
1661272--1661310	19	2.0	20	85	5	53	17	23	25	33	1.96
1661421--1661488	26	2.9	22	78	20	59	45	0	1	52	1.09
1661771--1661854	32	2.7	30	81	9	105	52	2	1	44	1.21
1662910--1663833	200	4.5	200	77	8	932	40	14	14	31	1.85
1663362--1663415	20	2.7	20	91	0	81	48	7	12	31	1.69
1663382--1663856	198	2.4	198	81	6	557	41	13	14	30	1.85
1663926--1663985	23	2.6	23	83	0	66	36	20	5	38	1.74
1663851--1664097	87	2.8	87	90	0	395	34	14	9	41	1.78
1664022--1664066	23	2.0	23	90	0	72	40	20	6	33	1.78
1664715--1664767	22	2.3	23	77	6	63	67	3	5	22	1.28
1666548--1666587	15	2.6	16	81	18	57	50	0	2	47	1.14
1666549--1666581	15	2.3	15	94	5	59	48	0	3	48	1.17
1668847--1668885	3	12.7	3	89	5	60	64	0	0	35	0.94
1668843--1668885	19	2.3	19	91	0	68	62	0	0	37	0.95
1670142--1670197	29	2.0	30	86	10	82	60	0	1	37	1.07
1672016--1672239	76	2.9	76	98	0	430	37	14	14	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673767--1673868	32	3.3	31	80	5	116	47	8	0	43	1.41
1675266--1675331	22	3.0	22	97	0	123	42	27	7	22	1.80
1678541--1678577	18	2.1	18	100	0	74	16	21	37	24	1.93
1678652--1678689	20	1.9	20	94	0	67	15	13	50	21	1.78
1678653--1678696	20	2.2	20	87	0	61	15	13	50	20	1.78
1678639--1678745	51	2.1	51	98	0	205	16	12	49	21	1.78
1678703--1678740	20	1.9	20	94	0	67	15	13	50	21	1.78
1679246--1679289	21	2.1	21	91	0	70	29	0	15	54	1.42
1679266--1679328	28	2.2	30	91	5	103	31	0	11	57	1.34
1680015--1680073	26	2.3	25	75	18	66	47	8	3	40	1.51
1681922--1682129	105	2.0	103	98	1	398	31	20	26	22	1.98
1682712--1682889	26	7.2	26	78	14	153	43	2	10	44	1.50
1682760--1682935	71	2.5	72	77	8	173	43	1	8	46	1.44
1683078--1683145	23	3.1	21	75	17	57	41	4	7	47	1.51
1683130--1683162	17	1.9	17	93	0	57	36	6	12	45	1.66
1685286--1685316	15	2.1	14	94	5	53	54	6	0	38	1.26
1685291--1685337	16	3.0	16	84	9	53	59	10	0	29	1.31
1685379--1685453	30	2.6	30	83	12	86	53	13	0	33	1.40
1685501--1685595	43	2.2	42	80	12	111	47	12	0	40	1.42
1686009--1686064	29	1.9	29	88	0	85	23	32	30	14	1.94
1686107--1686147	21	2.0	21	100	0	82	14	36	24	24	1.93
1686152--1686211	29	2.1	29	96	0	111	18	28	28	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1690988--1691033	19	2.3	21	81	11	60	21	26	8	43	1.81
1692165--1692273	21	5.3	21	76	15	77	78	0	12	7	0.99
1692191--1692220	13	2.3	13	94	0	51	83	0	6	10	0.81
1692184--1692264	22	3.7	22	78	15	80	82	0	9	7	0.83
1692184--1692249	18	3.3	18	80	17	60	83	0	7	9	0.82
1692202--1692262	24	2.6	24	89	2	79	83	0	9	6	0.80
1692191--1692277	34	2.5	33	80	12	88	81	0	10	8	0.87
1692211--1692262	24	2.1	25	92	3	88	82	0	9	7	0.84
1692915--1692979	28	2.3	29	91	5	114	38	35	4	21	1.74
1694006--1694062	28	2.0	28	96	0	105	36	14	15	33	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