genome.fa.s1700.2.7.7.80.10.50.1000.8.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: VEPZ01001700.1 Hibiscus syriacus cultivar Beakdansim tig00003398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2632955

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1314 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)
1501627--1501658	4	8.5	4	86	13	50	21	0	0	78	0.76
1501617--1501651	14	2.4	15	90	4	54	22	0	0	77	0.78
1503140--1503221	2	44.5	2	70	27	58	53	4	0	41	1.22
1503133--1503203	14	5.0	14	77	14	65	53	7	0	39	1.28
1503140--1503221	5	14.8	6	68	29	58	53	4	0	41	1.22
1503137--1503221	9	9.1	9	70	29	63	54	4	0	41	1.21
1503867--1503979	50	2.3	51	81	9	126	28	14	19	38	1.90
1505575--1505649	39	1.9	39	100	0	150	25	17	13	44	1.85
1506446--1506533	23	3.8	23	83	1	104	29	23	19	27	1.98
1510424--1510552	47	2.8	47	91	2	199	31	22	6	38	1.81
1516863--1516950	32	2.7	31	76	8	86	52	7	3	36	1.48
1516863--1516951	34	2.7	33	77	13	94	52	7	3	35	1.47
1524436--1524469	18	1.9	18	88	5	52	50	0	20	29	1.49
1529464--1529498	18	2.0	18	88	5	54	54	0	20	25	1.45
1536070--1536108	15	2.6	15	91	0	69	30	12	0	56	1.37
1541605--1541655	24	2.1	24	88	0	75	43	9	13	33	1.77
1542331--1542375	3	15.0	3	95	0	63	26	0	6	66	1.16
1542767--1542839	16	4.3	16	69	17	58	63	1	2	32	1.17
1549291--1549526	118	2.0	118	98	1	456	25	11	24	38	1.90
1549949--1550084	67	2.0	67	100	0	272	25	19	25	30	1.98
1553115--1553216	42	2.4	43	85	3	127	49	1	6	42	1.41
1560970--1561008	18	2.2	18	85	0	51	30	20	0	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1574042--1574104	32	2.0	32	100	0	126	28	25	17	28	1.97
1582026--1582112	31	2.9	30	86	6	106	47	8	17	27	1.75
1582045--1582112	31	2.2	31	94	5	120	45	7	20	26	1.77
1586874--1586954	12	7.1	11	78	12	74	82	1	11	4	0.87
1586880--1586954	11	6.3	12	78	14	68	82	1	10	5	0.88
1586864--1586953	25	3.5	27	70	25	79	82	1	11	5	0.89
1586864--1586942	40	2.0	39	85	9	108	83	1	10	5	0.85
1586864--1586960	30	3.4	30	77	11	80	81	1	12	5	0.90
1586866--1586957	27	3.4	25	76	16	78	81	1	11	5	0.91
1586866--1586960	13	6.9	14	75	19	60	81	1	12	5	0.92
1586864--1586962	16	6.1	16	75	13	60	80	1	13	5	0.92
1588580--1588640	31	2.0	31	93	0	104	52	11	11	24	1.70
1588576--1588654	31	2.5	31	78	8	97	51	11	13	22	1.73
1591516--1591553	18	2.1	19	90	5	60	26	18	31	23	1.97
1594461--1594611	44	3.4	44	79	0	176	19	22	22	35	1.96
1594664--1594721	30	1.9	30	89	0	89	17	24	25	32	1.96
1595639--1595776	50	2.8	50	74	3	145	55	13	13	17	1.70
1601131--1601181	19	2.6	20	81	9	61	15	9	0	74	1.06
1604218--1604276	28	2.1	28	90	6	93	33	27	8	30	1.86
1604588--1604641	19	2.8	20	81	10	60	35	16	24	24	1.95
1606320--1606431	45	2.5	45	82	7	136	25	24	9	40	1.86
1606579--1607132	54	10.3	54	83	2	628	26	20	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606644--1607203	162	3.5	160	82	4	590	27	20	20	32	1.97
1607127--1607239	54	2.1	53	85	1	145	33	19	19	27	1.96
1607567--1607607	22	2.0	21	85	9	57	34	26	14	24	1.94
1607659--1607711	20	2.6	21	85	8	74	16	30	16	35	1.92
1611716--1612270	54	10.2	54	86	2	718	26	20	19	34	1.96
1611850--1612343	162	3.0	162	80	5	403	27	19	18	34	1.96
1612794--1612844	19	2.6	20	90	6	86	17	33	17	31	1.94
1617472--1617522	19	2.6	20	90	3	77	31	13	29	25	1.94
1620478--1620589	43	2.6	44	77	4	120	37	23	18	20	1.94
1626325--1626456	44	3.0	44	86	2	185	30	22	23	23	1.99
1627041--1627079	15	2.6	15	87	0	51	64	0	7	28	1.21
1627370--1627910	263	2.0	264	96	2	989	29	12	24	33	1.92
1630992--1631197	74	2.7	75	87	6	301	22	31	25	21	1.98
1636920--1636957	19	2.0	19	89	0	58	21	36	26	15	1.93
1639572--1639765	74	2.6	74	83	7	257	22	31	24	21	1.98
1648299--1648430	12	10.9	12	65	24	55	77	0	12	9	1.00
1648301--1648400	8	12.8	8	89	10	154	78	0	12	10	0.98
1649506--1649777	90	3.0	91	91	1	456	37	14	22	25	1.92
1649597--1650147	230	2.4	229	91	1	881	36	16	21	25	1.94
1649369--1650003	320	2.0	321	91	0	1022	36	15	22	25	1.94
1649826--1650007	91	2.0	91	93	0	310	36	15	23	24	1.93
1651102--1651449	174	2.0	174	98	1	671	21	10	37	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656344--1656386	12	3.5	12	76	17	52	39	4	4	51	1.44
1656338--1656397	25	2.4	25	94	0	102	43	5	5	46	1.47
1656485--1656611	65	2.0	65	87	4	186	29	22	18	30	1.97
1656491--1656653	65	2.5	64	79	6	159	29	22	19	28	1.98
1666585--1666643	2	29.5	2	100	0	118	49	0	0	50	1.00
1670090--1670120	11	2.8	11	95	0	53	77	0	12	9	0.99
1670091--1670125	11	3.2	11	91	0	52	80	2	8	8	1.01
1671116--1671541	217	2.0	217	99	0	834	39	15	19	25	1.91
1671785--1672131	133	2.6	133	84	0	426	31	17	19	32	1.94
1672387--1672421	2	18.5	2	88	11	56	45	0	0	54	0.99
1674279--1674320	2	21.0	2	100	0	84	50	0	0	50	1.00
1676548--1676590	15	2.9	15	92	0	77	37	0	0	62	0.95
1677779--1677854	2	38.0	2	92	5	127	48	0	1	50	1.09
1687976--1688014	20	2.0	20	84	0	51	17	15	17	48	1.81
1689352--1689399	10	5.2	9	83	14	62	72	2	25	0	0.95
1691399--1691483	41	2.1	41	86	4	118	27	9	20	43	1.82
1700365--1700457	39	2.4	39	83	0	105	46	7	22	23	1.77
1700530--1700715	40	4.6	40	81	5	214	27	24	18	29	1.98
1700484--1700708	80	2.8	82	80	6	260	28	23	19	28	1.98
1703223--1703249	2	13.5	2	100	0	54	48	0	0	51	1.00
1706968--1707049	8	10.5	8	80	5	80	2	12	0	85	0.70
1706975--1707049	11	7.2	11	77	8	77	2	12	0	85	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706968--1707057	18	5.0	18	83	4	103	2	13	0	84	0.72
1706968--1707018	1	51.0	1	80	0	57	0	9	0	90	0.46
1715047--1715387	170	2.0	171	99	0	675	36	21	14	27	1.92
1719535--1719583	23	2.1	23	100	0	98	24	0	30	44	1.54
1721817--1721853	7	5.4	7	84	15	51	86	0	13	0	0.57
1721815--1721853	13	2.9	13	88	3	60	87	0	12	0	0.55
1721815--1721868	26	2.2	26	87	9	78	83	0	14	1	0.73
1723014--1723060	15	3.3	15	80	17	55	55	0	0	44	0.99
1730468--1730494	14	1.9	14	100	0	54	14	14	14	55	1.70
1732064--1732257	74	2.7	73	88	4	277	28	1	13	56	1.46
1732752--1732794	20	2.2	20	83	4	52	23	6	0	69	1.12
1732837--1732905	36	1.9	36	85	8	97	21	4	1	72	1.10
1735278--1735351	37	2.0	37	84	5	96	48	1	0	50	1.09
1735278--1735333	20	3.0	18	73	23	53	48	1	0	50	1.11
1735288--1735347	18	3.2	20	74	13	63	50	0	0	50	1.00
1736686--1736718	3	11.3	3	93	6	59	66	0	0	33	0.92
1753629--1753690	32	1.9	31	84	12	81	22	1	11	64	1.34
1753589--1753732	76	1.9	75	89	1	216	27	2	11	58	1.45
1754427--1754478	22	2.4	21	81	9	59	25	0	1	73	0.94
1754790--1754856	27	2.5	27	85	7	84	46	22	7	23	1.77
1755877--1756013	39	3.5	39	74	15	129	21	22	19	36	1.95
1756197--1756242	14	3.0	16	75	18	53	34	6	6	52	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759520--1759612	39	2.4	40	85	5	136	44	23	5	26	1.75
1760823--1760867	14	2.9	15	80	12	56	20	6	4	68	1.29
1764647--1764766	32	3.8	32	76	8	111	20	25	25	28	1.99
1766266--1766346	30	2.9	29	70	17	80	38	2	1	58	1.20
1766661--1766690	2	15.0	2	100	0	60	50	0	0	50	1.00
1771256--1771322	31	2.2	31	91	0	107	34	13	29	22	1.92
1775400--1775597	98	2.0	98	99	0	387	42	14	13	30	1.83
1781445--1781530	27	3.4	25	78	16	88	50	0	1	48	1.08
1781474--1781525	6	8.8	6	82	17	65	48	0	0	51	1.00
1781307--1781530	54	4.2	53	76	12	167	48	0	1	49	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11