genome.fa.s190.2.7.7.80.10.50.1000.7.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  7  of  62  ( 7381 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)
1484523--1484608	29	3.0	29	98	0	163	19	31	33	15	1.93
1490974--1491006	2	16.5	2	100	0	66	48	0	0	51	1.00
1495185--1495210	11	2.4	11	100	0	52	46	19	15	19	1.85
1499470--1499520	15	3.4	15	68	10	50	37	5	0	56	1.23
1502708--1502822	60	1.9	60	85	3	160	35	13	16	34	1.87
1504752--1504806	22	2.6	21	78	15	60	21	18	21	38	1.94
1504796--1504861	18	3.6	18	73	15	62	24	27	16	31	1.96
1507659--1507704	15	3.1	15	83	0	56	30	58	8	2	1.40
1507976--1508206	120	1.9	120	92	1	392	34	12	9	43	1.75
1513385--1513419	2	17.5	2	87	0	52	45	0	0	54	0.99
1517523--1517552	14	2.1	14	100	0	60	26	6	13	53	1.64
1524924--1524966	21	2.0	21	82	8	52	51	13	16	18	1.77
1525879--1525920	22	1.9	22	90	0	66	42	9	0	47	1.36
1526749--1526782	15	2.2	16	94	5	61	11	17	26	44	1.83
1538232--1538373	68	2.1	68	96	2	259	28	23	12	35	1.91
1540139--1540198	21	2.9	21	84	0	84	8	26	40	25	1.84
1542015--1542191	87	2.0	89	90	4	279	37	16	12	33	1.86
1542191--1542251	30	2.0	32	87	6	90	45	9	16	27	1.79
1551155--1551424	140	1.9	139	92	5	456	27	15	20	35	1.94
1553328--1553366	16	2.4	17	82	8	53	51	17	2	28	1.59
1553336--1553374	16	2.4	16	95	0	69	51	17	5	25	1.66
1553642--1553681	11	3.6	11	96	0	71	10	15	62	12	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557138--1557220	43	1.9	43	100	0	166	27	24	8	39	1.84
1557398--1557432	15	2.2	16	90	5	54	20	20	17	42	1.89
1559208--1559353	21	7.1	21	69	4	118	18	17	24	39	1.92
1559212--1559399	41	4.6	41	88	5	267	21	18	22	37	1.94
1559237--1559350	20	5.6	20	70	4	93	16	19	23	40	1.91
1559342--1559393	21	2.6	19	78	6	59	21	19	23	36	1.95
1559970--1559994	6	4.2	6	100	0	50	0	16	48	36	1.46
1560089--1560314	41	5.7	41	80	13	217	37	23	19	19	1.94
1560107--1560182	22	3.6	22	72	16	63	35	27	19	17	1.94
1560205--1560273	19	3.5	19	72	18	68	39	21	18	20	1.93
1560223--1560294	22	3.4	22	72	18	80	37	25	18	19	1.94
1560085--1560315	116	2.0	115	88	5	349	36	23	19	19	1.95
1560326--1560421	21	4.6	21	96	0	165	29	26	15	29	1.96
1564367--1564449	39	2.1	39	84	8	107	38	27	2	31	1.70
1576927--1576982	21	2.7	21	85	0	76	23	26	21	28	1.99
1577410--1577462	27	2.0	27	88	0	79	16	7	16	58	1.60
1578032--1578086	26	2.1	26	82	3	65	63	3	3	29	1.28
1580213--1580257	21	2.1	21	84	8	56	60	11	0	28	1.31
1580336--1580367	2	16.0	2	100	0	64	50	0	0	50	1.00
1589874--1589922	21	2.3	21	82	0	62	18	2	55	24	1.53
1593445--1593531	2	49.0	2	71	22	61	45	0	0	54	1.00
1593445--1593540	37	2.7	35	83	13	117	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1595891--1595958	36	1.9	35	84	3	91	26	16	2	54	1.56
1599529--1599573	19	2.4	20	85	14	69	51	0	0	48	1.00
1600047--1600071	12	2.1	12	100	0	50	48	0	0	52	1.00
1611682--1611745	30	2.1	30	82	0	74	34	10	20	34	1.88
1614186--1614482	153	1.9	153	89	2	463	30	23	14	31	1.94
1617190--1617250	31	1.9	32	87	9	90	42	6	0	50	1.28
1623664--1623739	38	2.0	38	97	0	143	34	19	7	38	1.81
1633893--1634024	51	2.6	51	91	0	219	43	16	12	26	1.84
1637403--1637580	15	11.5	15	85	8	241	47	0	1	51	1.08
1637560--1637761	32	7.2	32	67	30	167	35	0	10	53	1.40
1637583--1637625	22	2.0	22	100	0	86	34	0	13	51	1.42
1637478--1637635	69	2.3	67	84	6	203	43	0	5	51	1.25
1637560--1638337	54	14.4	54	71	16	501	33	0	12	53	1.42
1637736--1637782	22	2.4	19	86	13	60	29	0	17	53	1.44
1637560--1638022	80	5.8	80	82	7	548	33	0	12	53	1.42
1637816--1637889	22	3.2	22	67	20	60	27	0	14	58	1.37
1637950--1638145	32	5.8	32	71	15	142	35	0	10	54	1.36
1637985--1638081	22	4.0	22	70	23	77	37	0	10	52	1.36
1638070--1638123	14	3.6	14	72	18	54	37	0	5	57	1.22
1638007--1638322	80	3.9	80	91	3	490	33	0	12	53	1.42
1638351--1638407	30	1.9	30	92	0	96	47	5	7	40	1.53
1642172--1642224	19	2.8	20	80	8	65	41	5	0	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642209--1642279	25	2.8	25	77	14	67	32	11	0	56	1.35
1642707--1642762	21	2.7	21	91	0	94	37	16	14	32	1.88
1659600--1659640	18	2.3	18	95	0	73	34	17	4	43	1.70
1661621--1661674	15	3.4	15	82	15	56	53	9	1	35	1.44
1661631--1661674	18	2.8	16	86	13	56	50	11	0	38	1.39
1661644--1661686	18	2.4	18	84	0	59	37	16	2	44	1.60
1669003--1669051	26	1.9	25	83	4	62	44	12	32	10	1.75
1675132--1675345	77	2.8	77	91	1	340	42	17	17	22	1.89
1675614--1675657	19	2.3	19	88	0	61	38	27	9	25	1.86
1675820--1675849	14	2.1	14	93	0	51	50	16	20	13	1.78
1676236--1676264	14	2.1	14	93	6	51	34	10	20	34	1.87
1677773--1677811	15	2.6	15	95	0	69	10	12	58	17	1.61
1682796--1682848	17	2.9	18	83	8	54	54	1	0	43	1.11
1682768--1682839	23	3.0	23	71	16	58	59	2	0	37	1.12
1683054--1683156	51	2.0	50	83	5	127	20	33	31	15	1.94
1684351--1684440	29	2.9	30	75	12	85	30	6	7	55	1.54
1684397--1684453	29	2.0	29	82	0	69	29	5	8	56	1.52
1684616--1684691	29	2.6	29	75	10	73	22	6	9	61	1.49
1685357--1685453	39	2.3	43	83	11	114	50	1	2	46	1.20
1691614--1691690	36	2.2	35	83	2	91	48	6	12	32	1.67
1693281--1693326	18	2.7	18	90	6	69	19	13	30	36	1.90
1693328--1693422	49	1.9	49	91	0	154	14	30	37	16	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693928--1694036	57	1.9	57	86	0	155	32	14	16	36	1.89
1698170--1698210	2	20.5	2	100	0	82	51	0	0	48	1.00
1698520--1698662	30	4.9	27	72	21	76	66	1	4	27	1.18
1698589--1698633	12	3.7	12	81	3	54	66	0	4	28	1.11
1699205--1699301	37	2.6	37	86	0	140	30	9	16	43	1.79
1708563--1708599	19	1.9	19	94	0	65	32	29	16	21	1.95
1708565--1708733	78	2.2	79	91	3	270	28	26	17	26	1.98
1708782--1708838	21	2.7	21	91	0	96	43	19	17	19	1.88
1708856--1708895	21	2.0	20	85	9	55	20	22	22	35	1.96
1709275--1709355	19	3.9	19	75	17	72	30	28	6	34	1.82
1710973--1710997	2	12.5	2	100	0	50	48	0	0	52	1.00
1710995--1711368	4	93.5	4	100	0	748	25	0	24	50	1.50
1715108--1716633	106	14.5	106	91	2	2360	23	18	25	33	1.97
1715108--1716633	634	2.4	632	93	1	2544	23	18	25	33	1.97
1722079--1722536	120	3.8	120	78	4	436	28	22	26	22	1.99
1729213--1729311	33	3.1	33	89	2	139	26	15	20	38	1.92
1732896--1733207	120	2.6	120	87	2	421	25	25	26	21	1.99
1740178--1740248	21	3.4	22	75	5	60	70	4	1	23	1.13
1740211--1740287	23	3.3	23	80	10	68	74	2	3	19	1.10
1740234--1740270	14	2.7	14	87	4	58	83	0	0	16	0.64
1742600--1742631	2	16.0	2	100	0	64	50	0	0	50	1.00
1744046--1744086	2	20.5	2	100	0	82	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748247--1748343	49	2.0	49	89	0	149	48	8	6	37	1.58
1748503--1748628	58	2.2	58	81	4	146	26	15	19	38	1.91
1750772--1750884	60	1.9	60	83	3	147	38	11	14	35	1.82
1751090--1751147	24	2.4	25	77	13	68	37	5	1	55	1.33
1751659--1751700	22	1.9	22	85	0	57	40	14	23	21	1.90
1753561--1753949	184	2.1	182	88	4	568	43	3	7	45	1.50
1754427--1754491	2	32.5	2	96	0	121	50	1	0	47	1.10
1754525--1754594	30	2.3	30	80	7	79	62	4	8	24	1.42
1773420--1773498	37	2.1	37	90	0	122	27	17	17	36	1.93
1782257--1782337	20	4.1	20	76	9	76	23	34	25	16	1.95

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62