genome.fa.s8302.2.7.7.80.10.50.1000.8.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

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

This is table  8  of  17  ( 1926 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)
1453948--1454484	113	4.8	112	90	4	813	28	19	13	37	1.90
1453948--1454484	225	2.4	219	90	4	828	28	19	13	37	1.90
1454482--1454711	76	3.0	76	92	0	390	33	21	19	25	1.97
1455386--1455462	22	3.5	22	92	0	136	40	12	11	35	1.80
1458280--1458309	3	10.0	3	100	0	60	33	0	0	66	0.92
1463746--1463777	15	2.1	15	94	0	55	25	18	9	46	1.79
1470672--1471062	113	3.5	112	92	3	608	37	14	18	29	1.91
1470890--1470934	24	1.9	23	82	13	56	51	6	24	17	1.70
1471289--1471342	3	18.0	3	92	0	90	37	0	0	62	0.95
1471761--1471806	21	2.1	21	84	4	56	58	19	19	2	1.49
1475437--1475520	4	17.8	5	75	20	67	0	16	0	83	0.65
1475430--1475532	11	8.7	12	81	13	90	0	18	0	80	0.77
1475429--1475536	18	6.2	17	78	19	98	0	18	0	80	0.76
1475449--1475536	4	22.8	4	75	18	71	0	19	0	80	0.71
1475429--1475536	12	8.7	13	83	15	99	0	18	0	80	0.76
1475436--1475536	52	1.9	53	88	6	152	0	18	0	81	0.70
1480750--1480789	20	1.9	22	90	10	66	75	0	0	25	0.81
1481325--1481542	120	1.8	118	83	5	287	48	8	7	35	1.63
1481399--1481446	20	2.5	19	86	6	69	68	2	0	29	1.01
1481625--1481673	3	17.0	3	83	12	59	71	2	0	26	0.97
1481625--1481673	13	3.7	13	86	13	57	71	2	0	26	0.97
1481630--1481673	19	2.2	20	88	8	72	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481625--1481673	16	3.0	17	85	14	68	71	2	0	26	0.97
1483821--1483860	19	2.1	19	100	0	80	57	15	15	12	1.66
1488772--1488840	30	2.3	30	87	0	93	27	11	21	39	1.88
1500109--1500247	72	1.9	72	92	1	233	31	12	18	36	1.89
1511393--1511424	2	16.0	2	100	0	64	50	0	0	50	1.00
1513220--1513300	9	9.0	9	73	8	58	12	8	0	79	0.95
1513224--1513291	17	3.8	18	75	11	68	11	10	0	77	0.98
1513225--1513300	27	2.8	26	75	13	64	11	9	0	78	0.95
1513222--1513293	19	3.8	19	75	15	62	12	9	0	77	0.98
1521903--1521940	20	1.9	20	94	0	67	28	23	18	28	1.98
1524187--1524220	12	2.7	13	86	9	52	44	8	5	41	1.60
1530910--1530942	14	2.4	14	94	0	57	30	30	6	33	1.82
1537208--1537237	16	1.9	16	93	6	53	20	16	0	63	1.31
1537845--1537872	13	2.2	13	100	0	56	35	14	0	50	1.43
1539168--1539200	17	2.1	17	88	11	52	42	0	3	54	1.15
1540145--1540186	2	21.0	2	100	0	84	50	0	0	50	1.00
1541047--1541104	20	2.7	21	89	10	82	31	22	22	24	1.99
1541550--1541587	16	2.3	17	86	4	51	31	5	21	42	1.75
1541828--1541863	18	2.0	18	88	0	54	22	19	30	27	1.98
1542733--1542760	2	14.0	2	100	0	56	50	0	0	50	1.00
1545553--1545607	28	2.0	28	85	0	74	10	20	5	63	1.46
1551879--1551933	5	11.2	5	78	18	62	3	16	0	80	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1551873--1551924	24	2.2	24	82	6	61	5	17	0	76	0.97
1551881--1551919	19	2.1	19	90	0	60	5	15	0	79	0.90
1551889--1551933	19	2.4	19	92	7	74	0	15	0	84	0.62
1551872--1551973	51	2.0	52	81	9	120	7	16	0	74	1.10
1556365--1556581	117	1.9	117	86	3	312	49	7	14	28	1.71
1564724--1564763	17	2.4	17	100	0	80	42	0	47	10	1.37
1574889--1574934	22	2.0	22	83	4	56	34	0	13	52	1.40
1576004--1576036	17	2.1	17	88	11	52	42	0	3	54	1.15
1578770--1578908	33	4.2	33	91	0	215	19	26	20	33	1.96
1596645--1596943	150	2.0	150	93	1	510	33	11	18	35	1.87
1597862--1597898	17	2.3	16	90	9	58	8	10	0	81	0.89
1602431--1602468	11	3.7	10	83	16	51	23	0	0	76	0.79
1602427--1602473	20	2.2	22	85	7	71	34	0	0	65	0.93
1602438--1602484	20	2.3	20	81	0	58	36	0	0	63	0.94
1604625--1604671	6	7.5	6	77	17	51	2	6	25	65	1.27
1608549--1608582	12	2.7	13	86	9	52	44	8	5	41	1.60
1626704--1627567	429	2.0	429	98	0	1674	44	8	11	35	1.71
1627133--1628505	473	2.9	473	98	0	2656	44	8	11	35	1.72
1630047--1630083	18	2.1	18	90	10	58	24	8	21	45	1.78
1631929--1631969	17	2.5	17	80	7	50	17	4	0	78	0.93
1640056--1640138	34	2.4	34	95	2	148	26	16	15	40	1.89
1644918--1645149	40	5.9	37	75	18	170	70	3	6	19	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644955--1645019	20	3.3	20	69	16	55	72	3	9	15	1.23
1644973--1645170	5	39.4	5	66	18	58	72	2	5	20	1.16
1644918--1645150	39	5.9	37	75	19	190	70	3	6	19	1.23
1645058--1645120	26	2.6	24	76	16	67	74	0	1	23	0.90
1645064--1645120	22	2.5	22	78	18	64	73	0	1	24	0.92
1645138--1645174	8	4.8	8	87	12	51	78	0	0	21	0.75
1646664--1647621	106	9.0	106	94	0	1585	22	18	25	33	1.96
1649273--1649351	36	2.2	36	82	8	90	1	17	7	73	1.13
1649284--1649344	27	2.4	25	83	5	77	1	16	6	75	1.09
1649306--1649376	16	4.7	15	75	15	65	0	15	7	77	0.97
1652377--1652441	20	3.3	20	69	16	55	72	3	9	15	1.23
1652343--1652581	39	6.1	38	73	21	176	71	3	6	18	1.21
1652395--1652592	5	39.4	5	66	21	60	72	2	5	19	1.15
1652480--1652542	26	2.6	24	81	16	76	76	0	1	22	0.88
1652490--1652543	22	2.6	21	82	5	65	74	0	1	24	0.92
1652429--1652542	50	2.3	49	82	11	126	73	1	3	21	1.07
1660649--1660858	64	3.2	64	83	6	219	26	15	25	32	1.95
1660755--1660793	19	2.1	19	95	0	69	25	15	38	20	1.92
1660819--1660858	21	1.9	21	94	0	71	22	15	30	32	1.94
1663353--1663430	24	3.4	23	76	15	90	28	23	25	23	1.99
1663330--1663452	44	2.8	42	76	6	120	26	20	27	26	1.99
1669210--1669258	19	2.7	17	84	9	53	26	18	30	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669230--1669439	64	3.2	64	81	7	203	26	16	26	30	1.97
1669336--1669374	19	2.1	19	90	0	60	25	17	38	17	1.92
1669400--1669439	21	1.9	21	89	0	62	22	17	30	30	1.97
1670576--1670617	19	2.1	20	91	8	68	30	21	21	26	1.98
1670669--1670719	19	2.6	20	84	9	61	33	19	7	39	1.81
1670931--1670988	18	3.0	19	78	14	73	50	8	6	34	1.60
1670931--1670984	21	2.8	19	81	13	65	51	9	5	33	1.57
1673642--1673711	34	2.1	32	84	5	86	25	27	14	32	1.94
1673991--1674045	21	2.6	21	94	0	92	27	16	25	30	1.96
1681157--1681269	56	2.0	56	89	0	172	36	14	5	44	1.68
1681158--1681264	27	3.9	27	79	4	115	35	14	5	43	1.69
1682382--1682459	31	2.5	31	89	2	113	38	3	14	43	1.63
1683527--1683572	15	3.1	15	81	9	51	56	0	0	43	0.99
1686199--1686305	20	5.6	20	69	17	84	13	21	23	42	1.88
1686213--1686240	14	2.0	14	100	0	56	7	21	21	50	1.72
1686165--1686308	55	2.5	55	89	8	202	15	20	24	40	1.90
1686297--1686390	22	4.4	22	81	8	131	18	19	25	37	1.94
1686277--1686368	41	2.2	41	92	5	150	17	19	23	39	1.92
1689910--1689963	25	2.1	27	83	10	69	59	1	1	37	1.19
1690879--1690918	2	20.0	2	100	0	80	50	0	0	50	1.00
1690945--1690998	28	2.0	27	89	10	83	48	0	0	51	1.00
1691133--1691181	19	2.5	19	86	3	62	30	30	16	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691215--1691260	20	2.3	20	92	0	74	43	28	13	15	1.83
1691402--1691452	22	2.3	22	82	0	57	17	41	19	21	1.91
1691790--1691828	20	2.0	20	94	0	69	51	17	12	17	1.76
1693360--1693458	42	2.4	42	84	0	126	30	34	17	18	1.94
1693578--1693637	21	2.9	21	87	0	84	16	13	35	35	1.88
1693635--1693756	63	1.9	63	81	3	147	22	12	31	32	1.91
1694043--1694140	21	4.7	21	79	5	117	22	33	18	25	1.96
1695520--1695550	16	1.9	16	93	0	53	12	0	12	74	1.08
1695898--1695933	18	2.0	18	94	0	63	16	2	25	55	1.55
1698216--1698262	24	2.0	24	95	0	85	34	17	21	27	1.95

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