genome.fa.s9596.2.7.7.80.10.50.1000.7.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: VEPZ01009596.1 Hibiscus syriacus cultivar Beakdansim tig00116975_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1846166

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 926 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)
1497551--1498020	233	2.0	233	100	0	940	26	21	16	35	1.94
1499031--1499078	23	2.1	23	84	0	60	41	14	8	35	1.76
1499041--1499161	64	1.9	64	87	0	179	35	9	9	45	1.69
1505634--1505856	116	1.9	116	98	0	428	30	8	32	29	1.86
1507988--1508100	58	1.9	58	100	0	226	41	1	7	49	1.40
1507998--1508091	31	3.2	31	61	11	79	40	2	5	52	1.36
1510336--1510397	19	3.3	19	93	0	97	27	29	30	12	1.93
1512299--1512345	17	2.8	17	96	0	85	31	6	34	27	1.82
1512661--1512719	30	2.0	29	83	3	73	30	23	10	35	1.88
1518733--1518795	22	2.8	22	90	2	99	9	30	34	25	1.88
1524204--1524625	112	3.8	112	94	0	695	45	13	16	24	1.84
1524499--1524946	182	2.5	182	91	1	702	43	12	15	28	1.84
1542162--1542198	3	11.7	3	91	5	56	64	2	0	32	1.07
1544708--1544960	128	2.0	127	91	1	409	48	10	7	33	1.66
1553285--1553324	20	2.0	20	90	0	62	47	7	25	20	1.75
1554292--1554326	17	2.1	17	100	0	70	48	0	5	45	1.26
1555399--1555484	41	2.1	41	100	0	172	29	13	12	44	1.81
1563826--1564060	94	2.4	98	84	3	307	31	20	17	31	1.95
1565056--1565082	3	9.0	3	100	0	54	66	0	33	0	0.92
1573020--1573274	127	2.0	127	97	0	483	43	16	19	21	1.88
1575895--1575948	2	27.0	2	100	0	108	50	0	0	50	1.00
1581694--1581748	20	2.9	20	69	23	55	29	0	1	69	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581696--1581757	29	2.1	29	82	11	74	25	0	1	72	0.94
1581698--1581740	16	2.7	16	92	0	68	27	0	2	69	1.00
1581698--1581747	16	3.1	16	85	5	66	30	0	2	68	1.01
1581932--1581980	20	2.4	20	89	3	80	51	10	26	12	1.71
1582031--1582089	13	4.8	13	84	14	72	72	0	0	27	0.84
1582026--1582084	21	2.8	21	84	7	75	72	0	0	27	0.84
1582030--1582073	16	2.9	16	83	12	58	72	0	0	27	0.85
1582026--1582089	18	3.6	17	76	19	67	73	0	0	26	0.84
1582821--1582846	2	13.0	2	100	0	52	50	0	0	50	1.00
1583956--1583989	17	2.0	17	88	11	52	44	2	0	52	1.16
1589072--1589112	11	3.2	13	77	19	50	65	0	4	29	1.13
1589698--1589765	29	2.3	29	100	0	136	23	33	20	22	1.97
1591378--1591835	106	4.3	106	92	0	736	24	18	24	32	1.97
1591378--1592681	212	6.3	212	89	5	1903	23	18	24	33	1.97
1591734--1592647	94	9.1	94	88	7	1047	22	17	25	33	1.96
1591863--1592018	43	3.4	43	66	19	118	22	18	24	34	1.96
1592015--1592681	106	6.3	105	93	1	1064	22	17	25	34	1.96
1596519--1596559	11	3.2	13	77	19	50	65	0	4	29	1.13
1597144--1597211	29	2.3	29	100	0	136	23	33	20	22	1.97
1606951--1607010	13	4.8	13	76	15	63	66	3	0	30	1.07
1606969--1607006	8	4.8	8	81	12	51	68	2	0	28	1.03
1606965--1607038	16	4.6	16	76	5	60	67	4	0	28	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1606968--1607034	24	2.8	24	80	6	75	67	4	0	28	1.10
1606981--1607034	23	2.5	21	81	6	63	66	5	0	27	1.13
1608570--1610310	870	2.0	870	99	0	3473	38	16	19	24	1.92
1611641--1611665	12	2.1	12	100	0	50	36	0	24	40	1.55
1611907--1611985	22	3.7	22	84	5	108	30	21	26	21	1.98
1612499--1612544	20	2.3	20	96	0	83	50	0	28	21	1.49
1613360--1613572	103	2.1	103	95	0	381	26	13	23	35	1.92
1613589--1613656	23	3.0	23	86	0	91	20	26	26	26	1.99
1617147--1617185	16	2.6	16	84	8	55	33	0	2	64	1.08
1618958--1619009	25	2.2	25	80	16	65	69	1	1	26	1.10
1619982--1620016	18	1.9	18	94	0	61	20	20	31	28	1.97
1620658--1620705	21	2.3	21	81	0	51	27	4	2	66	1.21
1622273--1622316	18	2.5	18	96	3	81	38	4	11	45	1.61
1628650--1628715	35	1.9	34	84	9	89	19	9	4	66	1.37
1633790--1633849	3	20.0	3	80	0	57	6	28	5	60	1.43
1641322--1641563	120	2.0	120	89	3	371	26	9	42	21	1.83
1647183--1647514	166	2.0	166	100	0	664	31	12	19	36	1.89
1649245--1649294	21	2.4	21	89	0	73	12	6	10	72	1.28
1652073--1652121	18	2.8	18	77	17	50	46	0	22	30	1.52
1660562--1660618	24	2.4	24	100	0	114	28	26	22	22	1.99
1665536--1665609	37	2.0	37	84	5	96	50	1	4	44	1.29
1665748--1665785	20	2.0	19	90	10	60	18	21	10	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667465--1667499	11	3.2	11	91	0	61	28	20	0	51	1.47
1668295--1668334	21	1.9	21	84	0	53	37	5	17	40	1.72
1671938--1672133	75	2.6	76	88	4	281	19	24	32	23	1.97
1674708--1674767	22	2.7	22	75	10	59	16	23	35	25	1.95
1678590--1678629	21	1.9	21	85	10	55	35	10	2	52	1.48
1680554--1680752	75	2.6	77	88	4	280	19	24	33	23	1.97
1680554--1680762	76	2.8	77	86	4	282	20	23	32	24	1.98
1682259--1682289	13	2.5	13	94	5	55	35	0	0	64	0.94
1682248--1682292	14	3.2	14	81	18	58	37	0	2	60	1.09
1688723--1688763	2	20.5	2	100	0	82	51	0	0	48	1.00
1691811--1691852	22	1.9	22	85	0	57	45	2	4	47	1.36
1702533--1702609	37	2.1	37	90	0	118	55	15	11	16	1.68
1705441--1705475	14	2.4	15	90	4	54	45	14	11	28	1.79
1709007--1709050	22	2.0	22	100	0	88	18	18	31	31	1.95
1709060--1709128	23	3.0	23	84	0	102	30	26	26	17	1.97
1709970--1710011	21	2.0	21	90	0	66	28	23	16	30	1.96
1714195--1714263	23	3.0	23	79	8	86	33	26	23	17	1.96
1727600--1727772	84	2.1	83	80	11	201	34	18	19	27	1.95
1727578--1727772	42	4.7	42	76	12	161	33	17	20	28	1.95
1732650--1732779	41	3.2	41	86	0	161	32	16	23	27	1.96
1732713--1732809	41	2.4	41	84	3	115	30	11	24	32	1.91
1732808--1733085	41	6.8	40	76	4	225	36	16	16	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1736171--1736206	18	2.1	17	89	5	54	36	13	0	50	1.43
1736846--1737044	108	1.8	108	85	0	281	41	10	13	35	1.77
1737787--1737858	23	3.1	23	77	0	81	33	13	16	36	1.89
1737833--1738001	75	2.3	75	91	0	266	34	13	13	39	1.82
1738006--1738338	75	4.4	74	84	3	373	35	13	10	40	1.79
1737811--1738171	173	2.1	173	86	1	499	35	12	11	40	1.79
1739686--1739736	23	2.2	23	82	0	57	37	15	9	37	1.81
1739786--1739837	23	2.3	23	96	0	95	32	13	17	36	1.89
1739794--1739844	23	2.4	21	87	9	68	35	11	19	33	1.88
1739854--1740161	75	4.1	75	87	5	444	32	13	12	40	1.83
1741177--1741217	20	2.0	20	100	0	82	29	0	9	60	1.28
1743881--1743915	12	3.0	12	91	4	54	20	0	0	80	0.72
1743913--1743939	2	13.5	2	100	0	54	48	0	0	51	1.00
1744001--1744036	2	18.5	2	88	5	56	52	0	0	47	1.00
1743913--1744108	95	2.1	92	86	5	270	46	3	5	44	1.42
1744021--1744284	36	7.4	36	84	9	326	45	2	5	45	1.41
1744017--1744253	74	3.2	72	86	8	320	45	2	5	45	1.41
1744266--1744315	25	2.1	24	85	7	66	40	0	10	50	1.36
1745798--1745878	22	3.6	22	96	1	144	24	29	27	18	1.98
1745812--1745874	10	5.5	13	65	27	52	26	26	26	19	1.99
1747550--1747594	21	2.1	21	87	0	63	15	24	28	31	1.96
1750761--1750841	22	3.6	22	96	1	144	24	29	27	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750775--1750837	10	5.5	13	65	27	52	26	26	26	19	1.99
1751494--1751545	2	26.0	2	100	0	104	50	0	0	50	1.00
1752538--1752582	21	2.1	21	87	0	63	15	24	28	31	1.96
1754036--1754075	20	2.0	20	90	0	62	25	27	22	25	2.00
1754750--1754808	23	2.6	23	83	0	82	18	23	22	35	1.96
1755871--1755939	23	3.0	23	70	8	68	33	24	21	20	1.97
1757601--1757658	20	2.6	22	89	10	84	25	22	20	31	1.98
1757646--1757786	64	2.2	63	80	7	160	26	23	17	32	1.96
1761260--1761325	23	2.9	23	76	0	69	33	21	24	21	1.97
1762984--1763041	20	2.7	20	81	10	62	27	20	18	32	1.97

Tables:   1   2   3   4   5   6   7   8