genome.fa.s1465.2.7.7.80.10.50.1000.9.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  9  of  55  ( 6520 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)
1556765--1556820	15	3.7	15	73	0	58	35	8	37	17	1.82
1558500--1558526	2	13.5	2	100	0	54	51	0	0	48	1.00
1565884--1565914	2	15.5	2	100	0	62	51	0	0	48	1.00
1568300--1568342	22	2.0	22	86	4	61	41	27	11	18	1.85
1571778--1571809	15	2.1	15	94	0	55	46	12	15	25	1.81
1573409--1573452	19	2.3	19	88	0	70	29	43	9	18	1.80
1576768--1576805	2	19.0	2	100	0	76	50	0	0	50	1.00
1577053--1577209	50	3.1	51	75	9	137	17	30	31	20	1.96
1577053--1577179	51	2.5	50	83	3	139	16	33	30	18	1.94
1577229--1577272	21	2.0	20	83	12	52	25	47	2	25	1.63
1581347--1581386	21	1.9	21	89	0	62	10	25	40	25	1.86
1592956--1593071	47	2.4	49	84	5	146	30	23	20	25	1.99
1593083--1593210	51	2.5	51	91	1	195	16	32	35	16	1.91
1612122--1612260	50	2.8	51	80	4	158	40	18	23	17	1.91
1613354--1613391	14	2.7	14	100	0	76	39	23	5	31	1.77
1620212--1620255	22	2.0	22	81	0	52	52	15	4	27	1.63
1621803--1621844	12	3.5	12	100	0	84	7	26	7	59	1.50
1622364--1622413	3	17.0	3	84	12	68	66	0	0	34	0.92
1622700--1623024	43	7.5	43	72	10	207	23	20	30	25	1.98
1622700--1623064	43	8.6	41	70	10	182	22	19	31	26	1.98
1622620--1623079	129	3.6	129	91	2	672	23	20	29	26	1.98
1623343--1623422	35	2.2	36	82	8	92	28	8	20	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1623364--1623443	36	2.3	35	80	6	90	38	12	16	32	1.86
1623818--1623897	40	2.0	40	85	4	108	36	12	20	31	1.89
1624193--1624296	36	3.0	35	81	4	129	34	11	20	33	1.88
1624194--1624323	35	3.8	32	78	12	109	33	13	20	33	1.91
1624263--1624495	105	2.3	100	81	7	272	37	12	19	30	1.88
1624469--1624605	36	3.8	36	82	5	170	35	13	19	31	1.90
1624469--1624603	71	1.9	72	87	4	202	34	13	20	31	1.91
1626186--1626227	12	3.6	11	87	9	57	4	14	11	69	1.34
1626181--1626227	12	3.9	12	80	5	51	4	12	12	70	1.31
1626198--1626258	30	2.0	31	83	3	79	4	14	14	65	1.43
1626829--1626903	20	3.5	20	70	20	62	38	10	25	25	1.88
1626839--1626918	26	3.3	26	66	20	73	43	10	23	22	1.83
1626827--1626920	46	2.1	45	89	2	143	39	9	25	25	1.86
1630897--1630940	22	2.0	22	81	0	52	52	15	4	27	1.63
1632382--1632421	11	3.5	12	90	10	66	7	27	7	57	1.53
1632940--1632989	3	17.0	3	84	12	68	66	0	0	34	0.92
1634137--1634252	56	2.1	56	88	3	171	37	22	5	35	1.77
1639435--1639499	28	2.4	27	84	7	78	35	16	7	40	1.78
1639730--1639765	17	2.1	17	90	10	56	47	5	5	41	1.50
1639747--1639828	24	3.2	26	80	10	89	40	12	12	35	1.80
1640071--1640144	21	3.5	21	76	9	87	20	2	6	70	1.23
1640051--1640161	43	2.6	43	88	4	170	21	1	5	71	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640071--1640183	37	2.9	37	84	11	140	20	2	7	69	1.24
1640051--1640207	42	3.8	42	81	14	175	24	3	5	66	1.28
1640115--1640438	159	2.0	161	88	6	478	27	7	8	57	1.54
1640327--1640409	44	1.9	43	80	11	98	26	9	6	57	1.53
1640171--1640481	159	1.9	157	82	10	364	28	8	8	54	1.59
1640381--1640543	84	1.9	86	82	7	206	29	11	7	51	1.65
1640504--1640602	42	2.3	43	78	13	105	24	11	5	59	1.51
1642396--1642477	25	2.8	32	68	31	92	48	2	1	47	1.22
1647298--1647633	44	7.9	44	79	11	380	24	8	22	44	1.81
1647367--1647563	37	4.9	37	73	18	171	24	9	22	43	1.83
1647323--1647482	81	2.0	81	87	2	232	21	10	24	44	1.82
1647299--1647633	125	2.7	125	90	2	503	24	8	22	44	1.81
1652369--1652447	31	2.5	32	85	2	97	34	13	27	24	1.93
1653350--1653416	31	2.2	31	88	0	98	20	29	13	35	1.91
1655756--1655832	36	2.1	36	100	0	154	29	22	7	40	1.82
1674896--1674929	17	1.9	18	88	5	52	61	5	5	26	1.42
1684091--1684124	17	2.1	17	94	5	61	47	5	5	41	1.52
1684252--1684304	28	1.9	27	81	11	63	26	11	3	58	1.49
1687473--1687530	21	2.8	21	94	0	98	41	17	15	25	1.89
1687473--1687537	21	3.1	20	91	4	85	38	15	18	27	1.91
1693519--1693569	2	25.5	2	88	7	77	49	1	1	47	1.24
1697179--1697577	199	2.0	199	95	1	712	45	15	7	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701834--1701874	18	2.3	18	91	4	66	63	2	4	29	1.28
1703731--1703815	29	2.8	29	87	5	116	34	10	15	40	1.82
1703820--1703907	36	2.4	36	84	1	113	37	12	23	26	1.90
1704517--1704606	32	2.8	32	88	3	137	37	21	12	28	1.89
1705541--1705678	69	2.0	69	95	0	249	26	13	21	38	1.91
1705751--1705804	12	4.4	12	86	9	65	1	18	1	77	0.95
1705750--1705800	13	4.0	13	85	7	61	3	17	1	76	1.03
1705761--1705803	12	3.5	12	90	6	68	2	16	0	81	0.79
1708966--1709040	29	2.6	29	84	0	96	18	38	26	16	1.91
1708967--1709054	29	3.0	29	84	0	95	20	36	30	12	1.90
1709269--1709353	29	2.9	29	83	0	107	12	29	40	17	1.87
1710735--1710942	53	4.0	53	87	8	309	37	20	7	34	1.81
1710735--1710943	104	2.0	105	90	5	334	37	20	7	34	1.81
1711043--1711085	2	21.5	2	100	0	86	51	0	0	48	1.00
1714113--1714168	28	2.0	28	100	0	112	39	17	7	35	1.78
1718243--1718464	111	2.0	111	92	3	376	35	9	10	45	1.70
1720311--1720348	15	2.5	15	91	0	67	31	13	36	18	1.89
1725065--1725110	15	3.1	15	77	0	56	28	19	10	41	1.85
1726449--1726535	32	2.7	32	79	10	88	22	9	24	43	1.82
1733585--1733783	99	2.0	99	95	0	353	37	12	14	35	1.84
1734793--1734841	21	2.5	19	78	12	53	30	28	16	24	1.96
1737004--1737052	25	2.0	25	95	0	89	46	8	24	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1739565--1739597	17	2.0	16	94	5	57	6	39	0	54	1.25
1740512--1740540	14	2.1	14	100	0	58	17	6	48	27	1.72
1742104--1742152	20	2.6	18	82	17	64	28	24	20	26	1.99
1747619--1747724	31	3.4	31	81	3	106	33	32	22	12	1.91
1748552--1748578	2	13.5	2	100	0	54	51	0	0	48	1.00
1749581--1749625	23	1.9	24	90	4	74	31	24	22	22	1.99
1749616--1749643	13	2.2	13	100	0	56	25	14	32	28	1.94
1758273--1758357	23	3.7	23	85	3	100	23	30	25	20	1.98
1758273--1758334	23	2.7	23	94	0	106	22	32	25	19	1.97
1759725--1759772	18	2.6	17	87	12	69	43	25	29	2	1.66
1762808--1762851	18	2.4	18	88	0	70	2	18	4	75	1.09
1762808--1762874	21	3.5	20	76	9	68	2	17	4	74	1.11
1762808--1762873	18	3.4	18	75	17	62	3	18	3	75	1.06
1767287--1767339	22	2.4	22	76	20	56	20	16	0	62	1.33
1770249--1770287	20	1.9	21	89	5	62	20	5	5	69	1.28
1772003--1772034	11	3.0	11	95	4	57	90	0	9	0	0.45
1772003--1772034	10	3.1	10	91	8	55	90	0	9	0	0.45
1775269--1775393	31	4.0	31	79	9	137	30	19	19	31	1.96
1780182--1780308	31	4.1	31	78	9	141	29	18	20	31	1.96
1781117--1781162	24	1.9	24	86	0	65	39	8	13	39	1.75
1782900--1782933	17	2.0	17	88	0	50	70	0	26	2	1.01
1785995--1786037	22	1.9	23	86	13	63	20	9	2	67	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1786987--1787029	2	22.0	2	95	4	79	51	0	0	48	1.00
1787665--1787708	21	2.1	21	95	0	79	59	0	22	18	1.38
1791000--1791228	119	1.9	119	94	1	406	44	14	5	35	1.69
1791151--1791265	57	2.0	57	94	0	203	52	13	5	29	1.62
1796262--1796309	12	3.8	13	86	5	55	62	6	0	31	1.20
1796262--1796295	3	11.0	3	87	6	50	64	2	0	32	1.08
1796538--1796629	42	2.2	42	88	1	132	40	20	16	22	1.91
1796501--1797227	244	2.9	247	90	4	1124	37	17	14	30	1.90
1797411--1797456	18	2.5	20	73	26	55	30	6	17	45	1.73
1799101--1799145	22	2.1	22	84	8	58	26	17	17	37	1.93

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