genome.fa.s8803.2.7.7.80.10.50.1000.8.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: VEPZ01008803.1 Hibiscus syriacus cultivar Beakdansim tig00111954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1826237

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1039 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)
1530488--1530530	14	2.9	14	86	13	52	67	0	0	32	0.91
1533737--1534779	138	7.7	138	82	6	1239	24	21	22	32	1.98
1533643--1534779	264	4.3	265	83	6	1276	23	21	21	32	1.98
1534010--1534779	139	5.7	137	83	6	933	23	20	22	33	1.97
1534915--1534964	23	2.2	23	82	7	57	48	0	20	32	1.50
1535039--1535069	14	2.2	14	100	0	62	25	0	16	58	1.38
1535177--1535249	34	2.1	34	94	0	128	34	5	6	53	1.51
1535775--1535836	21	3.0	21	83	4	72	30	19	29	20	1.97
1535832--1535911	42	1.9	42	81	0	97	23	20	32	23	1.98
1537454--1537510	24	2.4	24	82	8	64	63	1	0	35	1.05
1537586--1537625	22	1.9	22	85	10	57	60	7	7	25	1.50
1537638--1537705	14	4.3	16	73	15	61	54	0	0	45	0.99
1537638--1537705	30	2.2	33	82	12	81	54	0	0	45	0.99
1538879--1538932	12	4.5	12	90	0	81	27	35	1	35	1.68
1543486--1543540	12	4.7	12	86	2	76	29	36	0	34	1.58
1545474--1545534	28	2.2	27	88	2	86	40	0	1	57	1.08
1547220--1547299	42	1.9	42	86	0	115	22	35	20	22	1.96
1547220--1547329	42	2.6	42	82	0	112	21	35	19	23	1.96
1547295--1547343	21	2.3	22	86	10	75	18	32	26	22	1.97
1548082--1548211	63	2.0	64	92	1	217	36	23	1	38	1.64
1548167--1548252	23	3.7	23	96	0	154	33	17	0	48	1.47
1548297--1548677	116	3.3	116	90	1	617	32	22	22	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1548499--1549041	180	3.0	180	89	4	781	33	20	23	23	1.97
1548822--1548948	64	2.0	65	96	1	238	40	15	22	21	1.91
1548297--1549179	296	3.0	293	75	9	973	32	21	22	22	1.98
1548887--1549663	116	6.7	116	92	1	1258	31	23	23	21	1.98
1552853--1552892	19	2.2	18	90	4	62	45	0	0	55	0.99
1552841--1552897	23	2.4	23	80	8	62	47	0	1	50	1.11
1552858--1552899	18	2.3	19	83	4	50	47	0	0	52	1.00
1565646--1565690	20	2.2	20	100	0	90	44	11	8	35	1.71
1565646--1565706	20	3.0	20	90	4	77	45	9	9	34	1.70
1568064--1568102	20	1.9	20	89	5	60	2	2	15	79	0.95
1568413--1568552	66	2.1	66	97	1	262	50	2	17	29	1.60
1571465--1571497	17	2.0	17	88	5	50	30	18	6	45	1.73
1572092--1572165	25	3.0	25	84	7	98	29	18	25	25	1.98
1572060--1572157	24	4.1	24	78	10	94	31	21	23	23	1.98
1572296--1572366	15	4.7	15	73	3	54	36	21	8	33	1.83
1578560--1578638	38	2.1	38	97	0	149	49	12	8	29	1.71
1586113--1586268	51	3.0	50	86	4	213	48	7	4	39	1.52
1586992--1587034	18	2.4	17	81	11	50	25	6	0	67	1.15
1587212--1587269	15	3.7	15	75	11	55	24	6	0	68	1.13
1590026--1590067	20	2.1	20	95	0	75	21	42	21	14	1.88
1591459--1591710	120	2.1	120	94	2	438	35	17	24	23	1.95
1594603--1594663	23	2.7	22	77	7	68	24	29	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596544--1596581	16	2.4	16	90	0	58	15	0	23	60	1.35
1597300--1597346	20	2.3	20	92	0	76	23	29	23	23	1.99
1597310--1597355	20	2.3	20	92	0	74	26	36	15	21	1.93
1602741--1603013	123	2.2	123	83	3	336	38	23	12	25	1.90
1602952--1603553	270	2.2	269	89	2	931	34	22	17	26	1.96
1604668--1604723	22	2.5	22	94	5	96	30	0	5	64	1.16
1604810--1604839	15	1.9	16	93	6	53	13	6	3	76	1.11
1604928--1604969	18	2.3	18	88	8	59	16	7	0	76	1.00
1605099--1605140	6	6.8	6	91	5	57	33	0	4	61	1.17
1605104--1605140	19	1.9	19	94	0	65	35	0	2	62	1.10
1607173--1607205	12	2.7	12	95	4	57	78	12	9	0	0.95
1614252--1614328	30	2.5	31	85	2	102	51	11	11	24	1.71
1615963--1616011	22	2.2	23	78	14	57	55	2	4	38	1.31
1621610--1621670	27	2.3	27	77	11	63	22	11	9	55	1.64
1625796--1625827	2	16.0	2	100	0	64	50	0	0	50	1.00
1627923--1627965	18	2.3	19	80	4	52	44	18	18	18	1.87
1628003--1628047	20	2.2	20	88	8	63	37	15	20	26	1.92
1627953--1628047	22	4.5	22	71	21	69	36	13	23	26	1.92
1627936--1628027	42	2.2	43	82	5	109	38	14	22	25	1.92
1628367--1628490	54	2.3	54	77	5	135	30	12	21	34	1.91
1628563--1629300	81	9.1	81	89	0	1100	34	10	22	32	1.88
1630045--1630074	2	15.5	2	93	6	53	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630569--1630593	12	2.1	12	100	0	50	44	8	8	40	1.63
1631779--1631836	18	3.2	17	81	15	64	48	3	1	46	1.29
1631803--1631859	18	3.2	18	78	11	55	47	5	1	45	1.35
1631870--1631908	21	2.0	20	90	10	62	46	5	10	38	1.60
1631952--1631984	2	16.0	2	93	6	57	48	0	3	48	1.17
1632084--1632125	19	2.3	18	92	8	68	45	0	26	28	1.54
1635131--1635166	16	2.2	16	95	0	63	50	0	27	22	1.50
1636116--1636165	17	2.9	17	81	0	55	46	4	14	36	1.63
1647438--1647475	18	2.1	18	90	0	58	28	21	10	39	1.86
1647109--1647823	364	2.0	363	86	4	1014	38	10	12	38	1.77
1647968--1648006	19	2.1	19	90	4	62	71	0	0	28	0.86
1648617--1648713	36	2.8	33	83	9	97	58	3	5	32	1.35
1648617--1648753	39	3.8	37	85	7	167	58	2	7	31	1.40
1648688--1648752	22	3.2	22	62	20	59	58	1	7	32	1.36
1649388--1649418	15	2.1	15	93	0	53	41	0	0	58	0.98
1651556--1651592	15	2.5	15	90	0	56	10	13	64	10	1.49
1653612--1653675	29	2.2	29	88	2	94	46	15	9	28	1.77
1658920--1659075	65	2.4	64	86	5	208	33	17	21	27	1.96
1663297--1663340	21	2.1	21	87	8	63	31	18	20	29	1.96
1663331--1663357	14	1.9	14	100	0	54	29	18	22	29	1.97
1663389--1663422	17	2.1	17	94	5	61	29	17	17	35	1.93
1664085--1664119	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1665157--1665247	2	49.0	2	66	14	52	50	0	0	49	1.00
1665160--1665212	17	3.1	17	71	28	58	52	0	0	47	1.00
1665157--1665267	39	2.9	38	80	9	118	49	0	0	50	1.00
1665297--1665352	29	1.9	29	92	0	94	25	30	12	32	1.92
1665300--1665367	29	2.3	29	85	5	84	23	30	10	35	1.88
1666042--1666079	12	3.0	13	80	7	51	50	5	13	31	1.63
1666104--1666146	17	2.4	18	92	7	70	67	16	0	16	1.24
1666532--1666602	23	3.2	23	71	18	69	28	19	21	30	1.97
1666509--1666629	44	2.8	44	80	8	140	26	21	21	30	1.98
1666524--1666590	21	3.1	21	77	12	73	28	19	19	32	1.96
1672311--1672448	65	2.1	64	86	4	188	33	17	20	28	1.95
1684408--1684849	221	2.0	219	98	1	850	32	19	14	33	1.92
1685439--1685816	55	6.9	55	90	2	541	30	18	19	30	1.96
1685439--1685815	164	2.3	164	88	2	553	30	18	19	30	1.96
1686165--1686235	22	3.5	20	76	10	74	26	32	14	26	1.94
1692260--1692693	55	7.9	55	85	0	548	31	18	18	30	1.96
1693119--1693163	22	2.0	23	86	4	65	26	31	13	28	1.94
1693052--1693236	95	1.9	95	87	2	273	27	26	15	30	1.96
1695493--1695520	5	5.6	5	100	0	56	64	0	0	35	0.94
1695650--1695689	16	2.5	16	100	0	80	57	5	7	30	1.48
1696671--1697210	112	4.8	113	90	5	807	27	20	13	38	1.90
1696665--1697210	220	2.5	221	89	5	825	27	20	13	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1697918--1698182	84	3.2	84	93	1	451	33	21	15	30	1.94
1699273--1699347	15	5.5	14	79	9	68	2	16	0	81	0.80
1699269--1699350	6	14.0	6	74	18	59	2	17	0	80	0.82
1699269--1699343	26	2.9	25	82	7	78	2	16	0	81	0.80
1699269--1699347	10	7.5	11	78	13	78	2	16	0	81	0.81
1710674--1710714	20	2.0	21	85	4	57	58	2	2	36	1.24
1712169--1712266	3	32.7	3	93	0	169	65	0	2	32	1.04
1713514--1713553	16	2.5	16	100	0	80	57	5	7	30	1.48
1714612--1714910	5	60.2	5	72	21	181	57	3	1	38	1.22
1714612--1714831	3	73.0	3	72	22	119	59	1	0	38	1.12

Tables:   1   2   3   4   5   6   7   8   9