genome.fa.s7800.2.7.7.80.10.50.1000.8.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  8  of  23  ( 2671 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)
1519101--1519462	104	3.5	103	86	5	489	22	25	19	32	1.98
1519681--1519836	36	4.3	36	90	0	213	19	20	24	35	1.96
1544999--1545044	24	1.9	23	82	8	56	45	10	2	41	1.51
1545140--1545174	15	2.2	17	90	10	56	68	5	0	25	1.11
1545949--1545975	8	3.4	8	100	0	54	44	11	0	44	1.39
1545984--1546034	24	2.1	23	86	13	68	39	1	0	58	1.09
1545991--1546034	22	1.9	24	90	9	74	40	0	0	59	0.98
1547690--1547829	36	3.9	35	86	2	199	19	23	20	37	1.94
1547690--1547834	72	2.0	71	93	1	245	18	23	19	38	1.93
1550586--1550647	32	1.9	31	83	6	79	45	1	0	53	1.10
1551815--1551848	14	2.4	14	95	0	59	76	8	0	14	1.01
1551872--1551946	12	6.3	12	70	20	50	76	1	4	18	1.02
1551872--1551948	18	4.0	18	72	21	59	75	1	3	19	1.03
1553278--1553377	35	2.8	37	81	6	114	43	5	5	47	1.47
1553256--1553517	110	2.4	110	80	9	286	45	5	3	44	1.45
1553364--1553426	29	2.1	31	85	5	85	46	1	3	49	1.27
1553269--1553589	36	8.8	35	75	11	220	45	5	4	44	1.47
1554275--1554891	84	7.5	83	79	5	664	24	21	25	29	1.99
1554274--1554844	164	3.4	164	86	2	811	24	21	24	29	1.99
1554279--1554891	249	2.5	247	84	3	777	24	21	24	29	1.99
1554230--1554891	165	4.0	164	84	3	805	24	21	25	28	1.99
1558268--1558311	18	2.4	18	88	7	63	68	9	13	9	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560026--1560068	16	2.8	16	82	13	54	76	9	0	13	1.01
1561499--1561598	35	2.8	37	81	6	114	43	5	5	47	1.47
1561585--1561647	29	2.1	31	85	5	85	46	1	3	49	1.27
1561477--1561821	38	9.3	37	73	13	232	45	6	4	44	1.47
1561456--1561798	74	4.7	72	71	13	218	46	6	4	43	1.47
1561456--1561786	37	9.1	35	72	12	184	46	6	3	43	1.46
1564061--1564087	6	4.5	6	100	0	54	85	0	14	0	0.61
1566000--1566072	30	2.4	30	86	0	101	30	19	17	32	1.95
1569256--1569387	29	4.5	30	86	7	175	52	9	11	27	1.67
1570426--1570489	3	21.7	3	96	3	121	65	0	0	34	0.93
1571028--1571162	31	4.3	32	72	12	84	34	8	9	47	1.66
1572217--1572268	20	2.5	21	87	3	79	40	19	21	19	1.92
1572236--1572391	41	3.8	41	81	6	156	33	24	19	21	1.97
1572257--1572371	20	5.7	20	84	6	133	31	26	19	22	1.98
1572234--1572311	21	3.8	21	75	13	72	41	23	17	17	1.91
1572750--1572803	14	3.5	14	75	22	54	11	22	20	46	1.82
1572930--1572966	14	2.6	14	86	0	56	48	21	0	29	1.50
1574814--1574867	20	2.7	20	88	0	81	37	24	24	14	1.93
1574854--1574912	19	3.4	19	73	22	65	49	20	16	13	1.80
1574870--1574960	14	5.9	14	72	20	74	48	21	17	12	1.80
1574854--1574976	33	3.8	33	89	2	176	47	21	17	13	1.81
1574994--1575048	14	3.6	14	73	17	56	12	16	23	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574977--1575068	32	2.8	32	81	5	112	13	19	22	44	1.85
1575040--1575087	20	2.4	20	89	0	69	14	22	27	35	1.93
1575570--1575615	18	2.6	18	85	0	65	15	15	41	28	1.87
1576933--1576991	20	3.0	20	87	0	73	42	22	18	16	1.89
1577254--1577297	22	2.0	22	90	0	70	20	15	43	20	1.88
1577465--1577578	41	2.8	41	82	4	142	23	16	24	35	1.95
1577526--1577579	20	2.7	20	97	0	99	25	16	25	31	1.97
1577465--1577582	61	1.9	62	84	5	159	22	16	23	37	1.93
1580443--1580473	8	3.9	8	95	0	53	16	58	0	25	1.38
1583563--1583604	21	2.0	21	86	13	61	69	2	23	4	1.20
1587542--1587576	18	2.0	18	88	5	54	45	8	22	22	1.79
1588573--1588646	36	2.1	35	94	2	130	37	24	6	31	1.81
1589679--1589707	12	2.4	12	100	0	58	41	6	20	31	1.79
1594846--1594890	20	2.2	20	92	0	72	24	20	28	26	1.99
1595275--1595304	15	2.0	15	93	0	51	20	30	26	23	1.98
1595525--1595564	20	1.9	21	85	10	55	35	37	12	15	1.85
1602692--1602752	21	2.7	23	82	10	72	29	3	8	59	1.43
1608569--1608596	14	2.0	14	100	0	56	35	0	0	64	0.94
1614497--1614529	14	2.4	14	94	0	57	6	15	27	51	1.66
1636180--1636213	6	5.7	6	89	10	52	85	14	0	0	0.60
1637384--1637420	20	1.9	19	89	10	58	45	10	24	18	1.81
1641312--1641356	21	2.1	21	88	8	65	46	28	2	22	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642114--1642810	349	2.0	349	99	0	1385	22	16	28	31	1.96
1643473--1643510	20	2.0	19	90	10	60	52	10	18	18	1.73
1660677--1660708	12	2.8	12	95	4	57	21	37	6	34	1.79
1660764--1660876	31	3.6	31	91	0	172	35	22	16	25	1.95
1664974--1665004	16	1.9	16	93	0	53	29	3	22	45	1.68
1669052--1669122	36	2.0	35	94	2	124	35	2	15	46	1.61
1672851--1672895	24	1.9	23	82	13	56	37	6	6	48	1.56
1673126--1673206	27	3.0	27	98	0	153	33	13	22	30	1.93
1678338--1678370	17	1.9	17	88	11	50	30	0	3	66	1.06
1682715--1682755	19	2.2	19	90	0	64	51	2	0	46	1.14
1687289--1687376	31	2.8	31	79	5	88	43	15	5	35	1.71
1687304--1687377	31	2.4	31	86	2	94	41	16	8	33	1.77
1693124--1693232	51	2.2	49	88	5	155	37	15	11	35	1.83
1698388--1698430	10	4.3	10	80	8	52	76	2	0	20	0.89
1700462--1700512	7	7.0	7	86	6	66	0	21	0	78	0.75
1700471--1700512	8	5.6	8	88	11	63	0	21	0	78	0.75
1700468--1700512	15	3.1	15	90	6	74	0	20	0	80	0.72
1700462--1700512	21	2.4	21	90	3	75	0	21	0	78	0.75
1705421--1705465	22	2.0	22	82	4	54	31	31	26	11	1.91
1706563--1706986	103	4.1	103	97	0	803	27	12	22	37	1.91
1706998--1707054	23	2.5	23	76	0	69	24	24	22	28	2.00
1710890--1710934	22	2.0	22	86	4	63	31	33	26	8	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712042--1712464	103	4.1	103	99	0	839	26	13	23	36	1.92
1712476--1712548	23	3.3	23	80	3	87	23	23	23	30	1.99
1716322--1716368	21	2.3	20	85	10	60	21	0	31	46	1.51
1720874--1720921	2	24.0	2	100	0	96	50	0	0	50	1.00
1729908--1729947	21	2.0	20	85	5	53	37	2	0	60	1.11
1737678--1737707	3	9.7	3	92	7	51	66	30	0	3	1.07
1739359--1739415	28	2.0	28	93	0	96	29	21	17	31	1.96
1740398--1740435	16	2.4	16	87	12	60	44	0	0	55	0.99
1740983--1741015	2	16.5	2	100	0	66	51	0	0	48	1.00
1748303--1748387	42	2.0	42	93	0	143	15	30	9	44	1.78
1750239--1750272	6	5.7	6	100	0	68	32	17	0	50	1.47
1752067--1752393	109	3.0	109	97	1	600	22	23	22	31	1.99
1758632--1758687	21	2.7	21	100	0	112	28	23	21	26	1.99
1758718--1758942	64	3.5	64	80	4	206	32	20	20	27	1.97
1759180--1759244	27	2.5	26	76	16	64	41	7	13	36	1.74
1759236--1759297	24	2.6	24	87	5	81	35	3	20	40	1.69
1759222--1759297	12	6.2	12	78	7	64	36	5	19	38	1.75
1759278--1759330	23	2.2	24	86	10	72	37	5	24	32	1.79
1762371--1762408	19	1.9	19	85	15	51	36	5	28	28	1.79
1762512--1762827	150	2.1	150	94	1	555	26	17	21	34	1.95
1762795--1762839	23	2.0	23	86	0	63	20	26	26	26	1.99
1769411--1769448	19	1.9	19	85	15	51	36	5	28	28	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769552--1769867	150	2.1	149	93	1	535	26	17	21	34	1.95
1769835--1769879	23	2.0	23	86	0	63	20	26	26	26	1.99
1774357--1774581	64	3.5	64	79	2	175	31	20	20	27	1.97
1774875--1774923	24	2.0	24	84	7	64	32	2	22	42	1.65
1774890--1774923	12	2.8	12	100	0	68	32	0	26	41	1.56
1780877--1780913	17	2.2	17	90	4	58	27	0	8	64	1.21
1784299--1784516	21	10.6	20	88	5	237	21	22	22	33	1.98
1784304--1784513	42	5.0	42	88	4	309	20	22	22	33	1.97
1784304--1784513	63	3.3	63	88	5	309	20	22	22	33	1.97
1784606--1784642	6	6.2	6	96	0	56	35	43	21	0	1.53

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23