genome.fa.s8091.2.7.7.80.10.50.1000.7.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: VEPZ01008091.1 Hibiscus syriacus cultivar Beakdansim tig00110602_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2471235

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

This is table  7  of  11  ( 1255 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)
1556856--1556955	42	2.4	42	80	6	112	24	17	34	25	1.96
1559120--1559185	19	3.4	19	89	4	89	10	15	22	51	1.73
1559210--1559241	13	2.5	13	100	0	64	78	15	6	0	0.95
1559214--1559247	13	2.8	12	91	8	52	76	14	8	0	1.01
1559455--1559505	22	2.3	22	89	0	75	25	13	39	21	1.90
1559672--1559734	21	3.0	21	69	4	65	30	17	20	31	1.96
1559666--1559733	20	3.3	20	71	4	64	26	16	25	32	1.96
1559723--1559774	20	2.6	19	76	8	59	26	15	30	26	1.96
1563012--1563096	38	2.4	34	76	14	98	45	0	1	52	1.08
1563180--1563265	36	2.4	36	88	5	129	13	40	13	31	1.85
1566948--1566982	18	1.9	18	88	0	52	28	17	0	54	1.43
1568299--1568344	18	2.6	18	100	0	92	13	17	52	17	1.75
1568278--1568322	13	3.5	13	87	0	72	17	22	44	15	1.86
1572122--1572156	18	1.9	18	88	0	52	28	17	0	54	1.43
1573447--1573519	18	4.1	18	78	19	80	13	19	47	19	1.82
1573456--1573510	13	4.5	13	84	13	80	14	20	49	16	1.80
1573469--1573519	23	2.2	23	96	0	93	11	17	50	19	1.76
1577295--1577329	18	1.9	18	88	0	52	28	17	0	54	1.43
1578628--1578652	13	1.9	13	100	0	50	20	24	40	16	1.91
1578633--1578706	18	4.4	18	78	16	86	14	20	48	16	1.81
1578651--1578687	13	2.8	13	91	0	65	13	21	48	16	1.80
1578625--1578704	31	2.6	31	93	0	133	16	20	47	16	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578664--1578709	18	2.6	18	100	0	92	13	17	52	17	1.75
1584984--1585042	29	2.0	29	100	0	118	23	13	13	49	1.78
1589668--1589726	29	2.0	29	100	0	118	23	13	13	49	1.78
1591401--1591431	16	1.9	16	100	0	62	45	6	25	22	1.76
1591843--1591906	2	32.0	2	100	0	128	50	0	0	50	1.00
1593732--1593784	5	9.8	5	76	15	52	7	20	50	20	1.72
1593725--1593762	17	2.2	17	100	0	76	10	23	47	18	1.79
1593718--1593784	22	3.0	22	91	4	98	11	22	46	19	1.82
1593725--1593785	17	3.3	17	77	20	68	11	21	47	19	1.81
1593781--1593851	10	7.3	9	74	12	52	28	25	29	16	1.97
1593794--1593852	20	2.9	21	85	9	79	30	23	27	18	1.98
1600016--1600092	31	2.5	31	80	2	91	28	29	25	15	1.96
1599969--1600092	63	2.0	63	82	6	153	26	28	27	17	1.98
1600992--1601029	17	2.2	17	100	0	76	10	23	47	18	1.79
1600965--1601002	7	5.4	7	93	0	67	26	26	28	18	1.98
1601004--1601047	12	3.8	12	77	17	56	9	22	50	18	1.75
1600999--1601051	23	2.4	22	96	3	97	7	20	52	18	1.69
1602007--1602053	12	3.8	13	75	13	55	40	2	0	57	1.11
1602007--1602059	11	4.5	11	75	11	52	45	1	0	52	1.11
1602000--1602060	24	2.5	24	97	0	113	42	3	0	54	1.17
1602000--1602073	24	3.1	24	90	0	67	44	4	0	51	1.20
1606623--1606672	19	2.6	19	96	0	91	46	4	10	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1612239--1612290	2	26.0	2	96	0	95	51	0	0	48	1.00
1620740--1620765	9	2.9	9	100	0	52	46	23	7	23	1.78
1620880--1620918	17	2.4	17	95	4	71	43	0	5	51	1.24
1628091--1628270	33	5.5	32	78	8	193	43	34	8	13	1.74
1628090--1628270	67	2.8	64	81	9	195	43	34	8	13	1.74
1643855--1643884	10	3.0	10	95	0	51	23	10	6	60	1.52
1645807--1645846	21	1.9	21	84	0	53	27	17	20	35	1.95
1648510--1648561	22	2.3	23	87	9	72	44	5	13	36	1.68
1651379--1651448	34	2.1	32	86	5	95	22	30	15	31	1.95
1651663--1651702	21	1.9	22	90	10	66	12	10	40	37	1.77
1651730--1651772	21	2.0	21	95	0	77	27	27	20	23	1.99
1651808--1651846	20	2.0	20	100	0	78	15	25	46	12	1.81
1651884--1651962	21	4.0	21	78	18	98	12	27	36	22	1.91
1651885--1651956	36	2.0	36	94	0	126	13	27	34	23	1.93
1651906--1651935	15	2.0	15	100	0	60	13	26	33	26	1.93
1652052--1652111	29	2.0	31	93	6	106	43	16	6	33	1.74
1654269--1654338	34	2.1	32	86	5	95	22	30	15	31	1.95
1654553--1654592	21	1.9	22	90	10	66	12	10	40	37	1.77
1654620--1654662	21	2.0	21	95	0	77	27	27	20	23	1.99
1654698--1654736	20	2.0	20	100	0	78	15	25	46	12	1.81
1654774--1654851	21	4.1	20	75	20	76	12	26	35	24	1.92
1654775--1654846	36	2.0	36	91	0	117	13	27	33	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654796--1654825	15	2.0	15	100	0	60	13	26	33	26	1.93
1654941--1655000	29	2.0	31	93	6	106	43	16	6	33	1.74
1655250--1655655	102	3.8	103	83	8	458	47	12	13	26	1.78
1655351--1655653	111	2.7	112	90	1	473	47	13	13	26	1.79
1664508--1664543	2	18.0	2	100	0	72	50	0	50	0	1.00
1668879--1668935	18	3.4	17	80	7	71	17	10	45	26	1.81
1669867--1669937	21	3.4	22	70	14	69	47	0	0	52	1.00
1669908--1669969	33	1.9	33	90	3	99	43	0	1	54	1.09
1671965--1672010	24	1.9	24	91	8	76	39	17	8	34	1.80
1672143--1672274	40	3.3	40	70	13	137	44	15	3	36	1.62
1672160--1672280	38	3.1	38	68	13	111	46	16	3	33	1.64
1672143--1672320	78	2.3	78	94	1	304	43	15	5	35	1.68
1672207--1672327	38	3.1	38	67	17	97	41	15	6	36	1.74
1673455--1673522	31	2.2	31	84	5	84	47	2	2	47	1.32
1673603--1673688	38	2.3	38	83	0	109	33	37	9	19	1.84
1675145--1675229	31	2.8	30	80	8	91	21	12	5	60	1.54
1680139--1680214	37	2.1	36	87	2	107	50	7	10	31	1.66
1685475--1685798	111	2.7	127	75	15	437	51	10	5	32	1.59
1685578--1685755	53	3.3	53	73	18	202	51	8	3	35	1.50
1693993--1694053	23	2.7	23	89	0	95	29	26	24	19	1.99
1694384--1694427	2	22.0	2	88	9	63	50	4	0	45	1.22
1698025--1698050	4	6.5	4	100	0	52	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1699113--1699164	26	2.0	26	96	0	95	26	13	3	55	1.55
1701171--1701203	12	2.8	12	95	0	57	51	9	30	9	1.64
1707485--1707509	2	12.5	2	100	0	50	48	0	0	52	1.00
1714716--1714740	11	2.3	11	100	0	50	28	12	16	44	1.83
1715172--1715214	6	7.2	6	100	0	86	34	48	16	0	1.46
1716449--1716504	14	4.3	14	73	17	57	10	14	21	53	1.70
1716456--1716524	24	2.9	24	86	4	86	13	11	15	59	1.61
1717510--1717557	16	3.1	16	82	5	64	14	10	16	58	1.63
1717619--1717651	16	2.1	16	100	0	66	6	12	24	57	1.57
1719425--1719456	6	5.3	6	100	0	64	31	50	0	18	1.48
1721845--1721909	32	2.0	32	96	0	121	24	9	13	52	1.70
1722729--1722773	19	2.3	20	84	3	56	55	2	0	42	1.12
1725368--1725438	34	2.1	34	86	0	97	22	28	38	11	1.88
1727670--1727699	14	2.1	15	93	6	53	70	0	0	30	0.88
1728137--1728221	4	19.8	4	75	13	64	69	2	1	27	1.08
1728140--1728199	26	2.3	26	86	8	79	68	1	0	30	0.99
1728133--1728216	18	5.1	18	72	15	74	66	3	1	28	1.15
1730055--1730128	26	2.9	27	80	8	82	33	5	13	47	1.66
1730132--1730215	25	3.4	25	89	0	132	35	2	14	47	1.57
1730234--1730303	27	2.5	29	79	9	90	25	4	20	50	1.66
1732564--1732608	23	2.0	23	90	0	72	22	8	8	60	1.55
1735801--1735837	2	18.5	2	100	0	74	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738974--1739131	21	7.8	20	70	7	77	39	24	17	18	1.92
1739099--1739327	20	11.4	20	80	5	221	37	25	17	19	1.94
1740020--1740066	24	2.0	24	87	8	69	25	14	21	38	1.92
1740241--1740265	12	2.1	12	100	0	50	72	0	28	0	0.86
1742564--1742797	72	3.3	72	81	10	297	46	17	22	14	1.84
1742550--1742819	53	5.1	52	90	8	415	45	17	22	13	1.84
1742531--1742824	72	4.2	68	78	13	276	44	18	22	14	1.85
1742550--1742819	105	2.6	105	91	7	426	45	17	22	13	1.84
1742796--1742911	53	2.2	52	84	3	151	19	23	18	38	1.93
1742834--1742931	19	5.4	19	82	13	134	15	22	16	45	1.84

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