genome.fa.s9585.2.7.7.80.10.50.1000.8.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  8  of  35  ( 4106 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)
1462855--1462942	3	29.7	3	88	6	81	57	0	0	42	0.98
1462842--1462933	30	3.1	30	85	3	123	55	0	0	44	0.99
1462868--1462932	24	2.7	24	95	0	112	53	0	0	46	1.00
1462865--1462933	27	2.6	27	95	0	120	55	0	0	44	0.99
1463297--1463826	113	4.7	113	86	0	747	28	19	13	38	1.90
1463279--1463826	226	2.4	226	95	0	974	28	19	14	37	1.91
1464986--1465035	17	2.9	17	78	3	55	58	4	6	32	1.41
1465391--1465421	8	3.9	8	91	0	53	0	12	0	87	0.55
1475867--1475924	18	3.4	18	73	17	52	65	6	1	25	1.27
1477233--1477299	27	2.5	27	85	4	82	55	0	0	44	0.99
1477259--1477299	21	2.0	21	85	9	57	53	0	0	46	1.00
1477469--1477502	16	2.1	16	89	10	52	67	2	0	29	1.05
1481738--1481771	17	2.0	17	88	0	50	58	0	5	35	1.22
1481710--1481765	28	1.9	29	82	7	69	51	1	7	39	1.40
1483251--1483299	18	2.7	18	100	0	98	42	34	0	22	1.54
1483927--1483969	20	2.2	19	83	4	50	44	13	0	41	1.44
1488942--1489029	22	3.9	22	86	5	104	25	23	25	26	2.00
1489014--1489050	17	2.2	17	95	0	65	29	29	16	24	1.96
1488943--1489029	11	7.6	11	79	7	93	25	24	24	26	2.00
1489328--1489374	21	2.2	21	96	0	85	51	29	0	19	1.47
1489342--1489429	35	2.5	35	78	7	90	46	28	0	25	1.53
1489368--1489442	35	2.1	35	85	9	100	44	28	1	26	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489695--1489735	14	3.1	14	76	20	52	41	0	4	53	1.22
1506866--1506905	19	2.1	19	85	0	53	50	5	2	42	1.37
1507548--1507624	31	2.4	32	80	2	93	28	28	25	16	1.97
1508512--1508585	29	2.6	29	86	4	105	39	21	5	33	1.76
1508650--1508678	13	2.2	13	100	0	58	6	31	62	0	1.22
1514758--1514879	63	1.9	63	86	3	174	27	27	26	18	1.98
1514758--1514879	31	3.9	31	74	6	113	27	27	26	18	1.98
1515760--1515839	29	2.8	29	88	7	112	41	22	5	31	1.75
1515836--1515868	17	1.9	17	100	0	66	12	24	45	18	1.83
1515867--1515925	30	2.0	30	86	6	84	20	25	28	25	1.99
1518816--1518979	81	2.0	82	95	2	294	34	8	13	43	1.74
1521199--1521237	17	2.3	17	95	0	69	53	5	10	30	1.56
1523340--1523395	23	2.4	23	90	0	94	39	23	14	23	1.91
1525303--1525376	32	2.3	32	81	9	98	20	32	25	21	1.97
1527585--1527765	37	4.9	37	78	0	146	24	25	15	34	1.95
1546920--1546984	27	2.4	27	94	0	121	38	18	12	30	1.88
1554566--1554602	16	2.3	16	100	0	74	48	0	21	29	1.50
1559272--1559375	51	2.0	54	88	7	160	35	13	9	41	1.77
1563219--1563456	132	1.8	132	99	0	467	15	25	30	28	1.96
1567443--1567485	20	2.2	20	86	0	59	30	13	20	34	1.92
1574969--1575012	19	2.3	19	100	0	88	31	20	13	34	1.92
1575713--1575912	75	2.7	75	88	0	294	32	27	22	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1576748--1577051	149	2.0	149	98	0	581	35	20	16	27	1.94
1577528--1577565	20	1.9	20	94	0	67	7	31	36	23	1.84
1586859--1586919	23	2.7	23	86	0	95	27	26	26	19	1.99
1592829--1592897	19	3.6	19	90	0	111	21	28	17	31	1.96
1593479--1593503	13	1.9	13	100	0	50	60	0	40	0	0.97
1596645--1596723	23	3.6	21	79	12	88	20	32	22	24	1.97
1599434--1599472	21	1.9	20	89	5	60	30	33	20	15	1.94
1599377--1599545	76	2.2	76	86	3	234	30	26	23	20	1.98
1600981--1601242	143	1.8	143	94	0	461	30	19	3	47	1.66
1601817--1601865	17	2.9	17	85	8	64	20	24	8	46	1.77
1602108--1602219	39	2.9	38	79	7	127	38	22	16	23	1.93
1603891--1603924	17	1.9	17	88	5	50	26	20	2	50	1.63
1605042--1605183	65	2.2	62	81	10	162	27	22	16	33	1.95
1607877--1607934	31	1.9	30	89	6	91	48	17	0	34	1.47
1608158--1608236	30	2.6	30	82	4	97	44	12	13	29	1.81
1609030--1609064	2	17.5	2	100	0	70	51	0	0	48	1.00
1612970--1613116	42	3.5	42	100	0	294	40	17	20	21	1.91
1623856--1623891	12	3.0	12	87	0	54	36	22	5	36	1.78
1624197--1624417	64	3.5	63	83	4	239	27	19	20	33	1.96
1630853--1630920	20	3.4	20	76	8	84	27	32	13	26	1.93
1630849--1630962	40	2.8	40	94	0	192	31	28	12	27	1.93
1630873--1630962	20	4.5	20	73	9	85	31	27	12	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631032--1631101	20	3.5	20	84	0	95	28	21	12	37	1.90
1630913--1631100	40	4.7	40	71	15	138	29	22	13	35	1.92
1634355--1634390	6	6.0	6	86	0	54	61	19	2	16	1.47
1634357--1634397	18	2.3	18	95	0	73	56	24	2	17	1.53
1634603--1634725	20	6.2	20	80	3	113	44	21	17	16	1.86
1636336--1636433	21	4.7	21	88	5	119	26	14	38	20	1.91
1636347--1636429	42	2.0	42	92	0	139	24	16	38	20	1.93
1636732--1636811	21	3.8	21	67	11	56	37	32	10	20	1.85
1636847--1636887	21	2.0	21	85	0	55	36	26	14	21	1.93
1637011--1637107	42	2.3	42	89	3	142	20	18	32	27	1.96
1639567--1639625	23	2.6	23	75	0	55	22	30	22	25	1.99
1640488--1640639	67	2.2	68	89	1	225	30	26	26	16	1.97
1641118--1641421	149	2.0	149	99	0	599	27	16	20	35	1.94
1641400--1641444	23	2.0	23	86	0	63	20	24	28	26	1.99
1647281--1647431	67	2.3	67	89	0	221	30	27	26	15	1.96
1647395--1647432	20	1.9	20	94	0	67	23	36	31	7	1.84
1647909--1648212	149	2.0	149	99	0	599	27	17	19	35	1.94
1648191--1648235	23	2.0	23	86	0	63	20	24	28	26	1.99
1654124--1654183	23	2.6	23	83	0	75	16	28	28	26	1.97
1657217--1657266	22	2.3	22	78	0	55	22	18	40	20	1.92
1657379--1657416	20	2.0	20	84	5	51	44	13	15	26	1.83
1657474--1657517	22	2.0	22	86	8	63	29	15	27	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657944--1658024	32	2.5	32	85	2	108	12	6	38	43	1.67
1657944--1658028	33	2.6	32	88	3	116	11	5	37	44	1.65
1658208--1658257	21	2.4	21	100	0	100	4	20	38	38	1.71
1658590--1658635	16	2.7	18	86	6	69	30	28	8	32	1.87
1659902--1659973	22	3.3	22	88	5	110	27	20	25	26	1.99
1659910--1659972	21	3.0	21	92	2	99	23	23	26	25	2.00
1660495--1660542	19	2.7	16	84	15	51	25	20	20	33	1.97
1666716--1666787	22	3.3	22	86	5	101	29	20	23	26	1.99
1666727--1666786	21	2.8	21	92	2	93	25	25	26	23	2.00
1667310--1667357	19	2.7	16	84	15	51	25	20	20	33	1.97
1675440--1675478	18	2.2	18	100	0	78	30	5	5	58	1.41
1686839--1686873	15	2.3	15	100	0	70	14	22	34	28	1.93
1689240--1689285	2	23.0	2	100	0	92	50	0	0	50	1.00
1712062--1712107	24	1.9	24	86	0	65	39	0	0	60	0.97
1715232--1715276	22	2.0	22	87	12	65	28	8	17	44	1.79
1716244--1716293	22	2.3	22	100	0	100	38	8	10	44	1.68
1718451--1718480	14	2.1	14	93	0	51	36	6	33	23	1.81
1735308--1735421	59	1.9	59	85	7	160	29	15	20	34	1.94
1747675--1747699	6	4.2	6	100	0	50	64	0	0	36	0.94
1747790--1747834	21	2.2	21	84	4	56	24	2	2	71	1.09
1747789--1747834	10	4.5	10	81	5	56	23	2	2	71	1.08
1748302--1748346	6	7.5	6	100	0	90	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1751669--1751723	2	28.0	2	96	3	103	50	0	49	0	1.00
1753545--1753629	40	2.0	43	88	6	131	28	23	3	44	1.70
1754003--1754049	7	6.6	7	85	2	58	46	31	0	21	1.51
1754003--1754049	14	3.3	14	87	3	67	46	31	0	21	1.51
1757780--1757812	15	2.1	17	88	11	52	66	0	0	33	0.92
1757778--1757816	17	2.3	18	83	16	57	61	0	0	38	0.96
1762715--1762740	13	2.0	13	100	0	52	23	7	15	53	1.67
1771249--1771350	34	2.9	36	91	5	172	44	13	14	27	1.83
1771795--1771825	2	15.5	2	100	0	62	48	0	0	51	1.00
1773229--1773266	5	7.6	5	100	0	76	18	0	0	81	0.69

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