genome.fa.s9574.2.7.7.80.10.50.1000.8.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: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2686660

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  8  of  14  ( 1597 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)
1558375--1558424	24	2.1	24	100	0	100	24	16	4	56	1.57
1562148--1562181	17	1.9	18	88	5	52	32	5	0	61	1.20
1565222--1565562	103	3.3	103	83	0	439	24	17	16	41	1.88
1565399--1565438	20	2.0	20	85	0	53	22	25	15	37	1.93
1565574--1565612	20	2.0	20	100	0	78	35	15	10	38	1.81
1565568--1565619	20	2.6	20	87	0	77	30	13	17	38	1.88
1566352--1566414	30	2.1	29	85	2	81	36	20	14	28	1.92
1566678--1567021	103	3.3	103	83	1	447	25	16	15	42	1.88
1566855--1566894	20	2.0	20	85	0	53	22	25	15	37	1.93
1568095--1568326	102	2.3	103	84	4	281	24	18	16	40	1.91
1568137--1568482	190	1.8	189	87	0	512	23	16	15	43	1.87
1568326--1568561	103	2.3	103	88	1	330	24	13	16	44	1.84
1568564--1568606	20	2.2	20	95	0	77	37	13	11	37	1.82
1568564--1568629	20	3.3	20	83	10	73	33	15	16	34	1.90
1569665--1569943	103	2.7	103	83	1	353	24	17	16	41	1.90
1569877--1569916	20	2.0	20	85	0	53	22	25	15	37	1.93
1569847--1570025	86	2.1	85	86	1	241	22	16	17	43	1.88
1570035--1570073	20	2.0	20	94	0	69	38	15	7	38	1.76
1571141--1571626	103	4.7	103	81	3	570	24	16	17	42	1.88
1571141--1571626	205	2.4	205	84	4	622	24	16	17	42	1.88
1571630--1571673	20	2.2	20	91	0	70	38	15	6	38	1.75
1572763--1573222	103	4.5	103	82	3	534	24	16	16	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572782--1573222	205	2.1	206	86	1	598	24	15	17	42	1.87
1574331--1574798	103	4.6	103	82	3	532	24	15	17	42	1.88
1574332--1574798	205	2.3	206	84	1	596	24	15	17	42	1.88
1575842--1576322	102	4.7	103	84	3	639	24	16	16	42	1.88
1575842--1576322	205	2.3	205	88	2	725	24	16	16	42	1.88
1576084--1576233	50	2.9	49	66	18	108	25	15	14	45	1.83
1578662--1578717	27	2.0	28	83	10	71	53	5	0	41	1.24
1583050--1583377	103	3.2	103	87	0	440	24	18	16	41	1.89
1583347--1583403	20	2.8	20	86	0	78	22	24	17	35	1.95
1583271--1583500	123	1.9	123	88	1	354	23	17	17	41	1.90
1588442--1588567	58	2.2	57	90	2	191	28	24	9	37	1.87
1589845--1589894	21	2.3	21	80	12	57	54	4	4	38	1.38
1594811--1594850	20	2.0	20	85	0	53	22	25	15	37	1.93
1594730--1594888	50	3.1	50	63	21	121	25	16	16	42	1.88
1594606--1594977	103	3.6	103	89	3	529	25	17	15	41	1.89
1595163--1595199	19	1.9	19	94	0	65	24	16	10	48	1.77
1595215--1595488	21	13.4	21	70	18	177	22	20	24	33	1.97
1595172--1595239	35	1.9	35	82	5	84	25	19	16	39	1.91
1595204--1595547	61	5.7	60	78	10	249	22	20	22	34	1.97
1595236--1595550	40	7.8	40	79	6	296	22	20	23	34	1.97
1595142--1595547	101	4.1	102	80	5	368	23	19	21	34	1.96
1595142--1595547	80	5.1	80	81	5	268	23	19	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1595946--1596036	19	4.4	20	75	17	96	30	27	5	36	1.80
1598784--1599259	103	4.7	103	83	4	612	25	16	16	41	1.88
1598784--1599259	102	4.7	100	81	8	534	25	16	16	41	1.88
1598784--1599270	202	2.4	200	85	4	636	25	16	16	41	1.88
1599262--1599330	20	3.5	20	80	4	77	34	11	14	39	1.82
1601819--1602394	103	5.7	103	84	5	726	25	17	17	40	1.90
1601965--1602352	195	2.0	195	89	2	600	26	16	16	40	1.90
1606321--1606664	172	2.0	172	98	1	665	17	18	22	41	1.90
1607363--1607645	55	5.2	55	92	0	433	30	24	14	30	1.94
1607890--1607949	15	4.0	15	91	0	93	51	0	0	48	1.00
1607865--1607949	30	2.9	30	87	3	111	48	0	2	49	1.14
1607948--1608054	32	3.7	32	75	23	135	34	0	14	51	1.42
1607980--1608022	22	2.0	22	100	0	86	34	0	13	51	1.42
1607937--1608107	54	3.2	53	94	2	297	35	0	12	52	1.39
1608034--1608075	22	2.0	21	95	4	75	33	0	14	52	1.42
1608060--1608399	22	12.5	31	67	31	178	33	0	11	54	1.39
1608091--1608518	54	8.2	53	88	7	562	34	0	11	54	1.39
1608091--1608742	51	12.5	54	81	11	654	34	0	12	53	1.39
1607937--1608291	190	1.9	189	94	3	639	34	0	11	53	1.37
1608091--1608518	209	2.1	206	89	7	645	34	0	11	54	1.39
1608325--1608474	22	6.0	22	67	23	84	34	0	12	53	1.43
1608559--1608601	21	2.0	21	95	0	77	37	0	13	48	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608552--1608651	22	5.4	18	66	29	68	35	0	13	52	1.40
1608533--1608681	53	2.9	53	89	8	213	33	0	14	52	1.42
1608757--1608815	31	1.9	31	89	0	91	42	11	6	38	1.68
1609000--1609239	55	4.3	55	89	3	358	30	24	13	32	1.93
1609000--1609351	111	3.2	109	85	6	381	28	23	14	33	1.94
1609194--1609407	56	3.8	56	97	0	401	25	22	16	35	1.95
1620552--1620625	32	2.3	32	97	0	139	36	24	10	28	1.89
1624631--1625108	103	4.7	103	85	4	612	25	17	17	40	1.90
1625631--1625671	18	2.2	19	91	4	66	39	7	19	34	1.80
1625994--1626377	193	2.0	189	94	4	682	30	15	12	41	1.84
1627854--1628180	99	3.3	99	84	8	407	24	18	16	40	1.91
1628122--1628161	20	2.0	20	95	0	71	20	27	20	32	1.97
1634964--1635035	20	3.5	20	71	14	65	33	19	13	33	1.91
1635568--1635602	15	2.3	15	95	0	61	54	2	0	42	1.15
1637291--1637771	103	4.7	103	89	1	705	41	16	17	24	1.89
1637451--1637713	53	5.1	51	66	19	145	39	17	17	25	1.91
1637291--1637771	205	2.3	206	90	0	766	41	16	17	24	1.89
1638247--1638280	11	3.1	11	91	0	50	52	32	5	8	1.56
1647216--1647258	20	2.1	21	87	8	63	18	13	0	67	1.23
1647215--1647264	20	2.5	20	75	15	59	18	18	0	64	1.30
1651087--1651120	17	2.1	16	88	5	50	14	8	0	76	1.01
1654557--1654613	20	2.9	20	97	2	107	10	10	47	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1664320--1664358	12	3.2	12	96	3	69	0	41	7	51	1.31
1664500--1664581	2	41.5	2	97	2	157	51	0	0	48	1.00
1664959--1665029	23	3.1	23	75	0	79	33	26	22	16	1.96
1665259--1665317	30	2.0	29	83	3	73	33	22	8	35	1.84
1668819--1668847	2	14.5	2	100	0	58	51	0	0	48	1.00
1669232--1669295	23	2.8	23	78	0	83	37	25	20	17	1.93
1669525--1669583	30	2.0	29	83	3	73	33	22	8	35	1.84
1676996--1677070	39	1.9	39	100	0	150	28	6	13	52	1.65
1677011--1677073	20	3.2	20	66	20	60	25	9	11	53	1.66
1678422--1678461	17	2.4	17	91	0	71	35	22	0	42	1.54
1683593--1683659	23	2.9	23	86	0	89	23	23	29	22	1.99
1691979--1692010	14	2.3	14	94	0	55	6	15	25	53	1.65
1693186--1693216	16	1.9	16	100	0	62	6	12	22	58	1.58
1694341--1694390	20	2.5	20	80	6	57	36	22	14	28	1.92
1694426--1694639	103	2.1	103	92	0	356	41	16	16	25	1.89
1694608--1694682	20	3.8	20	94	0	132	25	22	29	22	1.99
1694507--1694778	143	1.9	143	93	0	472	38	18	19	23	1.93
1694650--1694881	103	2.3	103	90	1	367	40	16	17	25	1.90
1694426--1694888	246	1.9	246	93	0	793	40	16	17	25	1.90
1705481--1705533	14	3.9	14	85	9	65	37	18	0	43	1.51
1705495--1705538	22	2.0	22	95	0	79	34	18	0	47	1.49
1705498--1705540	14	3.1	14	83	12	54	32	20	0	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705701--1705740	21	1.9	21	94	0	71	35	30	12	22	1.91
1706257--1706284	2	14.0	2	100	0	56	50	0	0	50	1.00
1711623--1711690	2	34.0	2	100	0	136	50	0	0	50	1.00
1714439--1714472	2	17.0	2	88	11	52	50	2	0	47	1.16
1714439--1714478	12	3.2	13	86	13	57	47	5	2	45	1.38
1714984--1715044	23	2.7	23	86	0	95	18	26	27	27	1.98
1717115--1717149	17	2.1	17	100	0	70	48	0	11	40	1.39
1719924--1719958	18	1.9	18	88	11	54	54	0	0	45	0.99
1720937--1720964	3	9.3	3	100	0	56	64	0	0	35	0.94
1722355--1722562	43	4.8	43	74	9	149	26	18	21	33	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14