genome.fa.s8056.2.7.7.80.10.50.1000.9.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: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2370532

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  9  of  13  ( 1489 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)
1526924--1526966	20	2.1	21	95	4	79	41	4	4	48	1.44
1531732--1531791	28	2.1	28	81	6	68	35	1	3	60	1.23
1539576--1539614	19	2.1	19	95	0	69	15	2	0	82	0.79
1539570--1539615	6	7.5	6	87	4	65	19	2	0	78	0.86
1539801--1539858	26	2.1	28	84	6	75	12	1	6	79	1.00
1539820--1539862	14	3.2	13	75	12	50	6	4	6	81	0.98
1539892--1539979	4	22.2	4	83	13	78	17	1	1	80	0.83
1539809--1539982	20	8.2	20	71	19	88	13	5	3	77	1.09
1539906--1539985	16	5.2	15	82	11	92	15	0	1	83	0.70
1539894--1539980	19	4.6	19	78	17	83	16	1	1	81	0.81
1541260--1541468	105	2.0	105	98	0	400	26	23	13	35	1.93
1547307--1547616	153	2.0	156	96	3	574	38	3	22	35	1.73
1548325--1548368	20	2.2	20	100	0	88	25	15	27	31	1.96
1555909--1555952	21	2.1	21	82	0	52	9	43	15	31	1.79
1557045--1557077	17	1.9	17	100	0	66	27	30	24	18	1.98
1557997--1558048	24	2.2	24	82	0	59	28	19	26	25	1.98
1560449--1560492	23	1.9	23	85	0	61	50	0	2	47	1.13
1560679--1560707	11	2.5	12	88	11	51	62	0	0	37	0.96
1560820--1560848	2	14.5	2	100	0	58	51	0	0	48	1.00
1561915--1561990	39	2.0	38	86	2	107	19	19	38	22	1.94
1562238--1562577	139	2.5	138	85	5	427	26	17	14	41	1.88
1562512--1562836	123	2.6	123	86	3	413	24	20	14	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562994--1563166	73	2.4	73	91	0	274	31	20	20	27	1.97
1563827--1563884	22	2.6	22	91	0	98	34	13	18	32	1.91
1574953--1574989	12	3.0	12	88	4	56	21	51	16	10	1.74
1576684--1576740	29	2.0	29	96	0	105	17	5	14	63	1.48
1583448--1583487	21	1.9	21	85	10	55	47	17	12	22	1.81
1584533--1584582	23	2.1	24	88	3	75	42	2	2	54	1.23
1585726--1585766	19	2.2	19	90	0	64	19	0	0	80	0.71
1585733--1585816	14	6.0	13	71	14	51	15	3	4	76	1.10
1585726--1585765	6	6.5	6	88	5	53	20	0	0	80	0.72
1585896--1585942	3	16.0	3	91	4	69	31	4	0	63	1.13
1586038--1586084	24	2.0	24	83	8	60	14	2	6	76	1.08
1586041--1586095	28	2.0	28	81	0	65	12	1	5	80	0.97
1586037--1586102	14	4.6	14	73	17	55	12	3	4	80	0.98
1586037--1586104	22	3.1	21	75	8	64	11	2	4	80	0.96
1586037--1586096	15	4.1	15	72	10	52	13	1	5	80	0.96
1590041--1590128	23	3.9	23	72	3	79	19	22	23	34	1.97
1590041--1590133	45	2.0	46	85	2	125	19	22	22	35	1.96
1590130--1590210	24	3.4	24	89	3	119	20	18	23	37	1.94
1598740--1598779	19	2.1	20	86	9	57	47	5	25	22	1.71
1612985--1613024	21	1.9	21	85	10	55	35	10	2	52	1.48
1616632--1616676	2	24.0	2	78	13	51	44	2	0	53	1.13
1616664--1616930	38	7.5	37	72	16	140	43	4	6	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1616703--1616930	36	6.6	34	72	20	129	44	3	5	46	1.46
1616771--1616828	27	2.3	26	88	8	84	44	5	6	43	1.53
1616739--1616864	62	2.0	66	82	7	161	42	6	7	43	1.57
1616806--1616930	35	3.5	35	80	8	128	43	4	4	48	1.43
1616936--1616973	15	2.5	16	83	12	53	50	0	0	50	1.00
1618267--1618311	23	2.0	23	86	8	65	20	8	0	71	1.12
1618364--1618482	12	9.7	11	67	22	51	15	8	4	71	1.26
1618362--1618407	18	2.5	17	86	10	56	17	4	2	76	1.06
1618391--1618483	37	2.5	38	78	5	109	16	9	4	69	1.31
1618552--1618576	13	1.9	13	100	0	50	36	8	0	56	1.29
1621839--1622082	95	2.7	94	80	12	280	31	18	18	31	1.95
1623228--1624332	84	13.3	82	78	5	1003	30	24	19	24	1.98
1623228--1624353	164	6.8	165	83	3	1022	30	24	19	24	1.98
1624942--1624991	20	2.5	20	86	3	64	36	4	0	60	1.16
1624980--1625122	38	3.8	37	81	9	146	44	4	6	44	1.50
1625019--1625246	35	6.6	36	70	22	136	44	5	4	46	1.46
1624978--1625246	36	7.6	37	71	17	153	43	5	5	45	1.48
1625084--1625144	27	2.4	25	83	8	70	42	6	4	45	1.51
1625064--1625184	62	1.9	65	84	5	167	41	8	5	44	1.58
1625129--1625277	37	4.1	36	79	8	124	44	4	4	46	1.43
1626673--1626718	17	2.7	16	83	12	56	15	4	2	78	1.01
1626708--1626746	14	2.8	14	85	11	53	17	7	5	69	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1626681--1626798	45	2.7	44	78	8	109	17	7	4	70	1.28
1627930--1627983	24	2.2	24	90	6	83	35	27	18	18	1.94
1628670--1628718	20	2.5	20	86	0	62	28	28	14	28	1.95
1631057--1631107	16	3.1	16	82	2	57	25	1	0	72	0.95
1631081--1631118	17	2.3	17	95	4	69	18	5	0	76	0.97
1632764--1632856	21	4.6	20	78	4	96	38	18	24	18	1.92
1632761--1632856	41	2.3	41	98	0	183	39	17	23	18	1.92
1632764--1632856	20	4.6	20	78	4	96	38	18	24	18	1.92
1632783--1632917	41	3.3	41	81	6	123	37	20	21	20	1.94
1632845--1632938	20	4.7	20	80	2	89	34	24	18	23	1.96
1633458--1633524	19	3.5	19	83	2	80	49	23	16	10	1.77
1633520--1633703	19	10.1	19	76	13	172	13	23	19	43	1.86
1633591--1633678	33	2.6	33	92	1	140	13	27	20	38	1.90
1633657--1633703	20	2.3	20	75	13	51	14	25	12	46	1.80
1635731--1635819	42	2.1	42	81	8	101	24	34	19	21	1.96
1636471--1636537	19	3.5	19	83	4	89	37	23	23	14	1.93
1636526--1636615	14	5.9	14	76	19	81	48	24	16	10	1.76
1636510--1636620	32	3.4	32	93	1	186	47	23	18	10	1.79
1636627--1636722	19	5.6	17	72	21	78	11	19	22	45	1.82
1636649--1636706	14	3.9	14	79	16	71	8	17	25	48	1.75
1636632--1636722	32	2.8	33	94	3	166	10	18	23	47	1.80
1636707--1636761	20	2.8	19	83	8	65	16	23	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637228--1637272	18	2.5	18	85	0	63	15	15	42	26	1.87
1638585--1638622	20	1.9	20	88	0	58	50	21	15	13	1.78
1638885--1638928	22	2.0	22	95	0	79	18	15	45	20	1.85
1639117--1639210	20	4.7	20	80	2	89	23	18	24	34	1.96
1639137--1639272	41	3.3	42	78	5	118	20	20	20	38	1.94
1639097--1639211	20	5.7	20	78	5	88	23	17	23	35	1.95
1639200--1639292	21	4.6	20	79	4	105	18	23	18	39	1.92
1639200--1639295	41	2.3	41	96	0	174	18	22	17	40	1.91
1649879--1650034	77	2.0	78	96	3	289	18	12	33	34	1.89
1653189--1653233	22	2.0	23	95	4	83	24	4	4	66	1.29
1656163--1656203	16	2.8	14	88	7	55	51	12	19	17	1.76
1656163--1656206	14	2.9	15	90	6	63	50	13	20	15	1.78
1660871--1660960	44	2.0	44	84	0	117	25	17	12	44	1.84
1672227--1672337	54	2.0	56	96	3	208	44	8	21	26	1.80
1674675--1674794	59	2.1	58	85	4	161	28	18	20	33	1.96
1676052--1676215	31	5.3	31	73	15	133	32	18	15	34	1.92
1676091--1676197	32	3.4	32	77	12	130	30	18	16	33	1.94
1676046--1676215	63	2.7	63	90	2	256	32	18	15	33	1.92
1679265--1679457	31	6.2	31	74	10	153	32	17	17	32	1.94
1679323--1679440	32	3.8	32	76	13	129	33	16	16	33	1.92
1679306--1679460	63	2.5	63	94	0	274	32	18	16	32	1.93
1682858--1682987	31	4.2	31	75	9	106	33	17	17	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687537--1687730	31	6.2	31	75	10	173	31	18	17	31	1.94
1687593--1687710	32	3.7	31	80	11	150	33	17	16	32	1.93
1687576--1687730	63	2.5	63	97	0	292	32	18	16	32	1.94
1688683--1688839	64	2.5	64	77	10	160	26	20	21	32	1.97
1690617--1690749	60	2.2	60	79	9	146	35	20	5	39	1.75
1690664--1690787	60	2.0	61	80	7	137	32	20	5	41	1.76
1690981--1691078	28	3.4	28	70	19	76	44	6	16	32	1.72
1690977--1691108	59	2.2	60	81	6	171	43	6	18	32	1.74
1695617--1695686	27	2.6	27	93	2	115	25	1	24	48	1.59
1696122--1696163	22	1.9	22	85	0	57	35	11	21	30	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13