genome.fa.s9611.2.7.7.80.10.50.1000.6.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  6  of  27  ( 3214 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)
1571076--1571119	23	1.9	23	90	0	70	38	9	11	40	1.73
1572515--1572554	12	3.4	12	80	19	57	52	2	0	45	1.14
1572504--1572563	23	2.7	23	89	2	95	53	6	0	40	1.27
1572771--1573274	74	6.9	74	85	4	655	40	13	11	33	1.82
1572784--1573274	147	3.4	146	86	6	631	39	14	11	34	1.82
1573270--1573792	192	2.8	182	82	6	652	44	11	13	30	1.79
1576057--1576095	18	2.2	18	85	0	51	53	7	15	23	1.67
1578459--1578498	21	1.9	21	85	10	55	32	5	5	57	1.42
1584946--1584989	17	2.5	17	89	10	63	75	4	0	20	0.98
1588752--1588776	3	8.3	3	100	0	50	0	32	0	68	0.90
1589282--1589315	16	2.2	16	89	5	52	47	0	2	50	1.16
1590861--1590937	31	2.5	30	75	14	75	25	27	28	18	1.98
1596236--1596309	23	3.3	23	76	18	75	50	1	0	48	1.09
1596747--1596785	17	2.2	19	86	9	55	48	0	2	48	1.15
1598202--1598258	23	2.5	23	94	0	96	45	17	19	17	1.86
1599648--1599787	43	3.3	43	82	2	165	31	21	21	25	1.98
1599633--1599831	86	2.3	87	78	8	201	31	19	21	27	1.97
1599981--1600037	21	2.8	20	84	5	71	56	21	3	19	1.57
1599990--1600037	19	2.4	21	86	6	64	58	20	2	18	1.49
1603369--1603527	52	3.1	52	98	0	309	43	16	7	32	1.76
1604587--1604738	42	3.7	42	86	7	199	25	21	19	34	1.96
1609357--1609398	2	21.5	2	85	4	59	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609949--1610031	42	2.0	42	92	0	139	33	34	4	26	1.78
1617739--1617769	13	2.5	12	90	10	53	74	0	0	25	0.82
1618954--1619082	44	2.9	44	89	2	197	45	8	14	31	1.75
1626600--1626640	7	5.1	8	83	16	50	78	0	2	19	0.87
1626599--1626628	7	4.1	7	91	8	51	83	0	0	16	0.65
1626599--1626628	15	2.1	14	93	6	51	83	0	0	16	0.65
1631575--1631625	21	2.4	21	100	0	102	9	19	23	47	1.79
1636111--1636189	31	2.7	30	79	13	85	25	22	15	36	1.93
1636179--1636218	16	2.5	16	83	0	53	22	25	12	40	1.89
1638006--1638062	30	2.0	30	83	10	75	31	1	1	64	1.13
1640526--1640573	24	2.0	24	91	0	78	52	8	16	22	1.71
1640621--1640874	75	3.4	75	88	0	382	42	11	13	32	1.81
1640870--1640921	23	2.3	23	83	6	61	42	13	5	38	1.68
1640810--1641111	121	2.5	121	86	3	428	40	12	13	32	1.83
1641011--1641062	23	2.3	23	86	6	70	40	17	15	26	1.89
1642908--1642970	29	2.1	30	85	8	85	31	3	1	63	1.19
1642914--1642972	24	2.4	25	75	8	59	28	3	1	66	1.18
1643016--1643082	22	3.0	23	86	4	109	25	0	23	50	1.49
1654523--1655344	106	7.7	106	94	0	1401	33	26	18	21	1.96
1654523--1655344	425	1.9	424	94	0	1437	33	26	18	21	1.96
1654523--1655400	319	2.8	311	91	2	1357	33	26	18	21	1.96
1656804--1656853	25	2.0	25	88	11	75	34	4	0	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1656804--1656871	17	4.4	15	71	23	52	35	2	0	61	1.11
1656818--1656863	19	2.3	20	85	3	67	32	2	0	65	1.05
1656905--1656971	22	3.0	23	86	4	109	25	0	23	50	1.49
1657103--1657143	19	2.2	19	87	12	59	24	2	4	68	1.22
1659878--1660039	77	2.1	78	90	2	254	30	24	12	32	1.93
1661547--1661605	15	4.2	14	79	14	59	23	1	6	67	1.24
1661550--1661733	23	7.7	23	70	14	122	26	4	5	63	1.36
1661550--1661614	27	2.4	27	89	0	94	23	3	6	67	1.27
1661550--1661653	4	26.0	4	71	11	79	25	2	4	66	1.26
1661663--1661730	27	2.8	24	78	13	75	26	1	8	63	1.32
1663838--1663900	29	2.2	29	91	5	101	17	11	7	63	1.50
1663952--1663993	17	2.4	17	84	11	50	40	9	2	47	1.49
1667845--1667873	2	14.5	2	100	0	58	0	48	0	51	1.00
1671990--1672041	20	2.6	20	100	0	104	23	21	17	38	1.93
1672029--1672171	21	6.8	21	73	16	127	18	20	24	36	1.95
1672035--1672171	42	3.3	42	96	0	256	18	19	24	36	1.95
1678727--1678783	28	2.0	28	93	0	96	24	24	28	22	2.00
1685571--1685647	36	2.1	36	95	0	136	35	19	10	35	1.86
1688439--1688480	17	2.5	17	96	0	75	23	19	14	42	1.87
1693138--1693185	24	2.0	23	96	4	87	31	29	4	35	1.76
1696224--1696273	12	4.3	12	73	19	52	44	2	0	54	1.11
1696238--1696690	22	20.6	22	91	0	701	40	0	10	49	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1697884--1698071	49	3.9	48	85	10	242	39	0	10	50	1.37
1697915--1697949	13	2.5	14	86	13	54	40	0	0	60	0.97
1698002--1698039	18	2.0	19	90	10	60	36	0	15	47	1.46
1698022--1698299	73	3.6	77	82	15	296	34	0	14	50	1.45
1698215--1698560	32	10.7	32	81	10	366	34	0	11	53	1.40
1698247--1698673	54	7.6	54	73	18	338	34	0	11	53	1.39
1697977--1698528	197	2.8	193	87	11	792	35	0	13	51	1.42
1698507--1698658	81	1.9	81	95	0	277	31	0	13	54	1.40
1698621--1698663	22	2.0	22	100	0	86	34	0	13	51	1.42
1699137--1699243	21	5.1	21	66	21	64	42	2	1	53	1.26
1699208--1699253	20	2.2	22	84	7	60	47	2	0	50	1.13
1699533--1699559	2	13.5	2	100	0	54	48	0	0	51	1.00
1700259--1700726	234	2.0	234	99	0	920	33	19	25	21	1.97
1701857--1701886	12	2.5	12	88	0	51	50	0	0	50	1.00
1703801--1703840	18	2.2	18	86	0	53	22	40	7	30	1.81
1705914--1705944	3	10.0	3	93	6	53	32	0	0	67	0.91
1707088--1707127	2	20.0	2	100	0	80	50	0	0	50	1.00
1707171--1707249	25	3.2	24	74	12	70	21	5	1	72	1.11
1714967--1715413	196	2.3	194	87	3	614	43	9	12	34	1.75
1715262--1715579	156	2.0	159	97	2	606	41	12	13	32	1.82
1716545--1716597	19	2.8	19	97	0	97	20	28	16	33	1.95
1716610--1716681	20	3.5	20	69	3	72	16	20	23	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716675--1716727	22	2.4	22	87	0	79	16	16	28	37	1.91
1716828--1716866	6	6.5	6	87	0	60	33	48	12	5	1.63
1720214--1720275	28	2.3	27	82	2	70	61	6	9	22	1.50
1720250--1720293	22	2.0	22	86	8	63	63	9	2	25	1.35
1720685--1720724	20	2.0	21	90	5	64	30	20	20	30	1.97
1722421--1722472	20	2.6	21	84	6	63	28	21	25	25	1.99
1722455--1722583	54	2.4	54	84	1	159	30	17	22	29	1.97
1723155--1723211	21	2.7	21	82	15	73	22	15	29	31	1.95
1725113--1725173	31	2.0	31	87	6	88	32	8	8	50	1.62
1725301--1725349	21	2.4	21	86	10	66	53	2	0	44	1.12
1725332--1725419	25	3.4	27	77	17	98	53	0	3	43	1.17
1725348--1725408	22	2.6	22	84	7	77	52	0	4	42	1.23
1734798--1734864	22	3.0	22	100	0	134	26	26	26	19	1.99
1735067--1735144	30	2.6	29	80	8	84	35	20	8	34	1.84
1735158--1735229	29	2.5	29	90	0	108	37	12	11	38	1.79
1735530--1735680	68	2.2	67	84	5	189	15	27	27	29	1.96
1735660--1735702	21	2.0	21	86	0	59	16	25	27	30	1.97
1741744--1741810	22	3.0	22	100	0	134	26	26	26	19	1.99
1742013--1742090	30	2.6	29	80	8	84	35	20	8	34	1.84
1742104--1742175	29	2.5	29	90	0	108	37	12	11	38	1.79
1742479--1742629	68	2.2	67	84	5	189	15	27	27	29	1.96
1742609--1742651	21	2.0	21	86	0	59	16	25	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1745079--1745109	11	2.8	11	100	0	62	9	25	35	29	1.88
1746920--1746965	12	3.6	12	81	16	56	45	17	19	17	1.85
1746926--1746966	12	3.1	13	80	19	57	46	14	17	21	1.84
1749257--1749296	21	1.9	21	94	0	71	30	15	7	47	1.72
1749291--1749389	33	3.0	33	94	1	164	32	7	15	45	1.73
1749375--1749429	13	4.2	13	75	13	58	34	3	12	49	1.59
1749825--1749880	15	3.6	15	79	9	67	32	12	12	42	1.80
1749844--1749877	18	1.9	18	94	5	61	38	11	11	38	1.79
1749971--1750002	16	2.0	17	88	11	50	43	21	21	12	1.86
1757976--1758005	13	2.3	13	94	0	51	66	0	0	33	0.92

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