genome.fa.s5680.2.7.7.80.10.50.1000.6.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: VEPZ01005680.1 Hibiscus syriacus cultivar Beakdansim tig00013285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1821426

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 720 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)
1455570--1455748	61	3.0	60	80	4	164	26	29	17	25	1.98
1455606--1455769	20	8.1	20	79	6	125	25	29	19	26	1.99
1455608--1455804	21	9.7	21	74	10	131	25	29	19	25	1.98
1456138--1456209	20	3.6	20	88	0	99	31	20	22	25	1.98
1456193--1456251	20	3.0	20	74	0	64	25	11	28	33	1.91
1476200--1476225	13	2.0	13	100	0	52	30	7	15	46	1.74
1484723--1484774	18	2.8	18	76	2	50	46	5	0	48	1.26
1484767--1484901	27	5.1	26	69	22	75	61	2	3	32	1.26
1484773--1484847	31	2.4	31	80	8	91	64	2	5	28	1.29
1484780--1484908	26	4.8	26	72	17	97	58	2	3	34	1.29
1489696--1489722	2	13.5	2	100	0	54	48	0	0	51	1.00
1500681--1500725	2	22.5	2	95	0	81	51	2	0	46	1.13
1501418--1501450	14	2.5	13	90	9	57	51	12	9	27	1.69
1503633--1503683	10	5.0	10	75	13	50	66	1	0	31	1.03
1509976--1510034	29	2.0	29	100	0	118	23	13	13	49	1.78
1511256--1511608	176	2.0	176	97	2	674	32	15	28	23	1.95
1514784--1514842	29	2.0	29	100	0	118	23	13	13	49	1.78
1518809--1518871	32	2.0	32	81	6	74	42	3	9	44	1.52
1520897--1521011	58	2.0	57	98	1	221	40	22	15	21	1.91
1522086--1522136	3	16.3	3	80	8	57	41	0	0	58	0.98
1522080--1522157	28	2.7	29	82	11	90	46	0	0	53	1.00
1523323--1523382	11	5.4	11	75	16	52	25	5	1	68	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1523323--1523389	22	3.0	22	80	10	66	26	5	1	65	1.24
1523317--1523382	33	1.9	36	85	14	95	25	6	1	66	1.23
1523331--1523389	11	5.4	10	80	15	55	27	5	1	66	1.22
1523396--1523427	14	2.1	16	88	11	50	46	0	0	53	1.00
1525913--1525957	23	2.0	23	87	12	67	37	17	4	40	1.70
1525913--1525957	22	2.0	22	87	12	65	37	17	4	40	1.70
1529436--1529884	75	6.1	75	74	10	286	26	16	26	30	1.97
1529548--1529884	150	2.3	145	80	9	364	26	17	25	30	1.97
1532611--1532661	23	2.3	22	83	6	59	35	7	17	39	1.79
1546544--1546614	18	4.1	18	70	17	51	49	15	0	35	1.45
1549276--1549314	10	3.9	10	89	0	51	35	23	0	41	1.55
1549275--1549315	20	2.0	20	90	0	64	34	26	0	39	1.57
1549356--1549396	18	2.3	18	91	4	66	29	4	0	65	1.13
1556167--1556346	3	60.3	3	95	1	326	34	1	0	64	1.01
1557656--1557722	19	3.3	19	70	24	55	23	2	5	67	1.27
1560155--1560208	14	3.8	14	82	4	63	24	14	9	51	1.71
1563460--1563491	17	1.9	16	93	6	55	84	0	15	0	0.63
1565726--1566231	84	6.0	84	97	1	935	29	14	22	34	1.93
1566915--1567812	113	8.0	113	91	0	1449	37	13	18	29	1.90
1568132--1568304	3	57.7	3	95	0	310	33	2	0	64	1.07
1568303--1568347	22	2.1	21	84	8	56	62	2	0	35	1.08
1571409--1571455	19	2.5	19	76	13	51	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574441--1574474	16	2.1	16	94	0	59	32	8	26	32	1.87
1606010--1606069	3	20.3	3	96	3	113	33	0	0	66	0.92
1609023--1609060	2	19.0	2	100	0	76	50	0	0	50	1.00
1610385--1610475	31	3.0	31	96	3	168	32	6	17	42	1.75
1610540--1610606	19	3.5	19	91	0	98	40	10	13	35	1.79
1610713--1610754	21	2.0	21	95	0	75	23	21	28	26	1.99
1610783--1610822	20	1.9	21	85	10	55	37	37	10	15	1.80
1611037--1611106	34	2.1	32	86	5	95	31	15	30	22	1.95
1611683--1611965	36	7.9	36	90	4	394	16	22	24	36	1.94
1613312--1613413	3	34.7	3	88	3	145	34	0	0	64	1.00
1614984--1615036	17	3.1	18	72	10	56	54	0	5	39	1.24
1626054--1626102	11	4.4	11	89	2	71	91	4	4	0	0.49
1626054--1626102	22	2.2	22	92	0	80	91	4	4	0	0.49
1626054--1626094	1	41.0	1	90	0	64	95	2	2	0	0.33
1626431--1626467	19	1.9	19	94	0	65	29	5	13	51	1.63
1627329--1627637	52	5.9	52	95	2	559	23	15	23	37	1.93
1627723--1627750	14	2.0	14	100	0	56	21	35	21	21	1.96
1628283--1628929	119	5.5	118	93	3	1089	36	15	19	28	1.92
1628283--1628929	233	2.8	235	92	5	1089	36	15	19	28	1.92
1629084--1629183	3	33.7	3	84	6	132	32	1	0	67	0.98
1630444--1630488	18	2.5	17	82	10	54	24	0	2	73	0.95
1630725--1630777	17	3.1	18	72	10	56	54	0	5	39	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636067--1636106	20	2.0	20	100	0	80	25	0	25	50	1.50
1640149--1640220	19	3.5	19	68	23	56	16	4	25	54	1.60
1640112--1640281	43	3.9	43	88	1	241	17	2	25	54	1.55
1644734--1644856	63	2.0	63	83	3	158	21	27	13	36	1.92
1658962--1659157	93	2.1	94	89	2	306	39	13	9	37	1.77
1659086--1659288	26	7.7	25	68	17	108	37	15	8	37	1.78
1659069--1659313	78	3.1	80	92	3	397	37	15	8	39	1.77
1659267--1659430	65	2.5	65	81	6	170	40	15	5	39	1.70
1659236--1659545	158	1.9	164	87	6	461	39	14	6	39	1.73
1660529--1660660	59	2.2	59	81	2	149	34	16	5	43	1.71
1661055--1661105	19	2.8	20	80	19	58	41	1	3	52	1.31
1678911--1678951	21	1.9	22	90	5	66	46	0	2	51	1.14
1683968--1684027	31	1.9	32	86	10	88	51	0	1	46	1.10
1683979--1684015	10	3.9	10	86	6	51	51	0	0	48	1.00
1683902--1684171	134	2.0	133	99	0	531	47	2	8	40	1.50
1684102--1684161	31	1.9	32	86	10	88	51	0	1	46	1.10
1684113--1684149	10	3.9	10	86	6	51	51	0	0	48	1.00
1689498--1689576	35	2.3	35	97	0	149	56	12	16	13	1.66
1701544--1701580	16	2.3	16	90	0	65	29	18	0	51	1.47
1714466--1714521	16	3.8	14	76	17	51	28	5	0	66	1.14
1715235--1715260	6	4.3	6	100	0	52	50	0	50	0	1.00
1716500--1716560	29	2.1	30	93	3	106	16	19	16	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1717306--1717334	6	4.8	6	100	0	58	68	0	0	31	0.89
1717591--1717632	22	1.9	22	85	9	59	50	7	2	40	1.43
1719488--1719525	20	2.0	20	89	5	60	39	0	0	60	0.97
1723283--1723321	19	2.1	19	85	9	53	53	17	7	20	1.68
1744860--1744893	16	2.1	17	88	5	52	11	0	14	73	1.10
1757484--1757535	23	2.3	23	96	3	97	57	3	13	25	1.53
1759536--1759573	18	2.1	18	90	9	60	31	26	23	18	1.97
1759686--1759794	51	2.1	51	88	3	157	4	34	16	44	1.68
1759778--1759887	30	3.7	30	86	4	141	4	31	20	43	1.71
1763581--1763825	122	2.0	122	100	0	490	44	7	8	39	1.62
1766878--1766924	18	2.6	18	89	3	67	46	4	6	42	1.48
1769314--1769464	42	3.6	42	77	6	146	33	17	20	27	1.96
1769326--1769502	42	4.3	41	78	7	144	33	15	21	29	1.94
1769905--1769952	22	2.2	22	88	7	71	41	12	18	27	1.86
1771038--1771180	41	3.5	40	73	7	137	34	17	16	30	1.93
1771000--1771168	82	2.0	83	84	5	218	34	18	13	33	1.90
1771041--1771193	82	1.8	82	82	8	193	36	16	16	30	1.91
1772402--1772514	50	2.3	50	96	0	208	38	16	8	35	1.80
1779136--1779176	21	2.0	21	100	0	82	43	14	39	2	1.59
1779141--1779231	21	4.3	21	78	10	80	42	20	35	1	1.60
1779164--1779256	33	2.8	33	84	9	118	44	22	33	0	1.53
1779194--1779240	24	2.0	24	83	8	60	44	23	31	0	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1779248--1779296	21	2.3	21	85	0	62	44	18	32	4	1.68
1779728--1779837	41	2.6	42	78	5	116	32	26	17	23	1.96
1782918--1782976	28	2.1	28	93	0	100	44	8	20	27	1.80
1794306--1794338	18	1.9	17	88	11	50	51	24	9	15	1.72
1798599--1798637	21	1.9	20	84	5	51	41	5	2	51	1.38
1799539--1799578	21	1.9	22	85	10	57	55	5	2	37	1.35
1809635--1809664	15	2.0	15	100	0	60	33	13	46	6	1.69
1810710--1810743	16	2.1	16	94	0	59	32	8	26	32	1.87
1817025--1817058	10	3.4	10	95	0	59	20	29	32	17	1.96
1818198--1818269	33	2.2	33	87	0	108	26	16	16	40	1.90

Tables:   1   2   3   4   5   6

The End!