genome.fa.s7993.2.7.7.80.10.50.1000.9.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: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2245901

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

This is table  9  of  12  ( 1410 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)
1617445--1617836	102	3.9	102	93	0	651	29	20	12	38	1.89
1617563--1617633	37	1.9	37	88	0	106	23	21	12	42	1.87
1617751--1617789	21	1.9	20	84	5	51	23	12	12	51	1.74
1617445--1617903	204	2.2	203	88	1	659	29	20	12	37	1.89
1617750--1617836	36	2.4	36	86	0	111	26	19	12	41	1.87
1617778--1617915	67	2.1	67	91	0	222	31	21	13	34	1.91
1618521--1618987	108	4.3	109	84	3	561	32	26	19	21	1.97
1618521--1619145	108	5.9	102	81	7	445	32	25	20	21	1.97
1618581--1619145	206	2.7	209	80	7	590	32	25	20	21	1.97
1619610--1619706	36	2.6	36	83	6	115	39	14	13	32	1.85
1620151--1620234	11	7.3	11	71	19	55	34	3	2	59	1.28
1620183--1620225	15	2.7	15	78	7	50	37	2	0	60	1.10
1620403--1620460	21	2.7	22	78	5	64	27	3	1	67	1.17
1629185--1629230	20	2.3	19	78	10	56	21	17	8	52	1.71
1631286--1631456	2	94.0	2	70	23	112	54	4	0	40	1.24
1631286--1631456	7	24.6	7	71	18	94	54	4	0	40	1.24
1631445--1631512	22	3.0	22	76	8	75	44	7	1	47	1.40
1631285--1631455	5	33.2	5	75	16	120	54	4	0	40	1.23
1631488--1631569	37	2.2	38	86	4	112	40	7	3	48	1.48
1631521--1631692	37	4.8	34	76	9	130	43	8	6	41	1.61
1631553--1631692	71	2.0	70	83	8	176	42	8	6	42	1.61
1631691--1631737	22	2.2	21	88	3	67	44	12	2	40	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1633192--1633390	29	7.0	29	86	5	246	50	16	2	30	1.56
1633179--1633390	57	3.7	57	83	5	250	50	16	1	31	1.56
1633465--1633521	19	2.9	19	84	2	69	26	28	22	22	1.99
1640562--1640769	29	7.2	28	81	9	213	51	14	1	31	1.53
1640562--1640769	57	3.6	58	82	5	242	51	14	1	31	1.53
1640770--1640802	7	4.9	7	88	3	50	30	27	27	15	1.96
1642788--1642825	17	2.3	17	95	4	69	34	23	31	10	1.89
1643471--1643513	18	2.5	18	77	7	54	32	9	6	51	1.61
1644062--1644894	423	2.0	424	86	3	1178	31	19	15	34	1.92
1645791--1645840	25	2.0	25	100	0	100	52	0	8	40	1.31
1649738--1649822	29	2.8	30	80	10	93	76	7	2	14	1.09
1652461--1652631	54	3.4	54	71	21	170	30	16	22	29	1.96
1652515--1652769	42	5.5	42	66	23	127	28	17	23	30	1.97
1652272--1652835	96	5.9	96	87	1	774	30	16	23	29	1.96
1652837--1653507	117	5.7	117	87	0	912	26	22	14	36	1.93
1653951--1654072	36	3.5	36	68	15	121	40	13	16	29	1.86
1654201--1654312	40	2.9	38	84	7	111	40	14	16	29	1.87
1654250--1654353	38	2.7	39	85	2	131	40	13	15	30	1.86
1654361--1654568	76	2.7	75	85	7	260	39	14	15	29	1.88
1654509--1654629	61	2.0	61	83	3	154	45	9	17	28	1.78
1654570--1654731	75	2.1	75	82	3	209	42	8	15	33	1.77
1654433--1654704	137	2.0	136	83	3	341	42	10	15	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1654677--1654855	37	4.8	36	74	10	139	37	16	17	28	1.91
1655129--1655176	25	1.9	25	83	8	62	41	6	14	37	1.71
1656000--1656060	13	4.3	13	77	20	52	3	13	1	81	0.88
1656001--1656060	21	2.7	22	80	14	70	3	13	1	81	0.89
1659853--1659921	30	2.4	29	79	18	81	75	7	2	14	1.13
1670262--1670380	36	3.2	36	66	9	94	42	14	15	28	1.86
1670223--1670434	76	2.8	76	87	4	324	40	12	17	30	1.86
1670298--1670544	134	1.8	134	87	5	365	40	10	17	31	1.84
1670617--1670707	37	2.5	36	82	7	112	38	17	17	26	1.92
1670982--1671029	25	1.9	25	83	8	62	41	6	14	37	1.71
1671550--1671583	18	1.9	17	88	5	50	35	5	14	44	1.70
1671840--1671899	21	2.9	20	81	16	61	1	11	5	81	0.91
1671834--1671899	29	2.3	30	79	10	75	1	12	6	80	0.96
1673287--1673563	149	1.9	148	87	2	412	22	24	16	36	1.95
1681397--1681747	42	7.5	42	66	21	155	29	16	24	29	1.97
1681346--1681909	96	5.9	96	88	1	765	30	15	24	29	1.96
1681347--1681909	288	2.0	287	88	1	849	30	15	24	29	1.96
1681911--1682576	117	5.7	117	86	3	896	26	21	15	36	1.94
1683268--1683405	40	3.5	38	84	6	150	36	15	17	29	1.91
1683427--1683641	76	2.8	75	88	4	306	41	13	16	28	1.87
1683640--1683791	73	2.1	72	82	8	182	42	10	15	30	1.81
1684194--1684241	25	1.9	25	83	8	62	41	6	14	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685058--1685112	21	2.6	21	79	2	65	0	20	3	76	0.94
1688659--1688733	9	9.4	8	79	15	50	77	6	1	14	1.04
1688668--1688701	7	4.6	7	86	13	50	85	0	0	14	0.60
1688669--1688737	14	5.1	13	72	19	52	78	5	1	14	1.01
1688665--1688737	15	4.9	15	70	21	55	78	5	1	15	1.00
1699229--1699268	18	2.2	18	86	0	53	17	17	40	25	1.91
1699489--1700681	370	3.2	366	88	2	1739	37	14	14	33	1.86
1702501--1703344	367	2.3	370	91	2	1358	37	13	14	33	1.86
1704282--1704401	40	3.0	40	95	0	213	33	25	16	24	1.96
1706528--1708396	841	2.2	839	89	1	2886	34	15	15	34	1.89
1708812--1708839	2	14.0	2	100	0	56	50	0	0	50	1.00
1714491--1714529	16	2.5	16	88	12	55	79	2	0	17	0.84
1714516--1714798	85	3.2	86	68	22	256	64	6	7	21	1.42
1714687--1714713	12	2.2	12	100	0	54	85	0	0	14	0.61
1724558--1724586	15	1.9	15	100	0	58	37	6	27	27	1.82
1725990--1726031	21	2.0	21	95	0	75	28	21	19	30	1.97
1726693--1726743	18	2.8	18	93	0	84	49	15	5	29	1.68
1729040--1729083	21	2.1	21	95	0	79	47	11	18	22	1.80
1732725--1732758	6	5.7	6	100	0	68	17	0	0	82	0.67
1738816--1738948	65	2.1	64	94	1	230	28	22	7	41	1.81
1739739--1739772	15	2.3	15	90	5	52	0	17	44	38	1.49
1739866--1740213	7	49.4	7	74	18	287	53	3	2	41	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1739866--1740216	67	5.5	65	75	14	215	52	3	2	41	1.30
1739875--1740216	60	6.0	58	77	15	290	52	3	2	41	1.31
1748850--1748927	22	3.7	22	88	6	108	33	16	19	30	1.94
1749271--1749500	54	4.3	54	87	1	309	30	17	19	32	1.95
1749293--1749547	108	2.4	108	81	2	289	30	16	18	33	1.94
1754197--1754280	39	2.2	39	86	0	114	9	23	34	32	1.87
1754328--1754471	5	29.6	5	72	19	101	54	4	0	39	1.27
1754359--1754493	2	71.5	2	72	27	93	53	5	0	41	1.23
1754327--1754493	7	24.1	7	72	21	113	53	5	0	40	1.28
1754558--1754606	20	2.5	20	100	0	98	16	24	20	38	1.92
1755142--1755182	2	20.5	2	100	0	82	51	0	0	48	1.00
1755515--1755558	23	1.9	23	95	0	79	25	0	2	72	0.96
1755498--1755557	5	12.6	5	79	13	56	21	0	1	76	0.87
1757601--1757643	2	21.5	2	86	9	61	48	2	0	48	1.14
1763220--1763261	21	2.0	21	86	9	59	35	14	11	38	1.83
1764297--1764331	2	17.5	2	100	0	70	0	0	48	51	1.00
1764589--1764713	59	2.1	58	80	11	139	72	0	24	3	1.05
1764677--1764722	23	1.9	23	86	8	65	76	2	21	0	0.90
1764591--1764734	30	4.9	28	70	15	85	72	0	23	2	1.02
1764644--1764749	7	14.4	7	75	15	72	75	0	22	0	0.92
1764623--1764737	59	2.0	58	83	11	146	73	0	22	2	1.00
1764644--1764748	21	4.8	21	75	17	90	75	0	22	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769512--1769576	18	3.3	19	79	16	62	41	3	3	52	1.32
1772291--1772353	30	2.1	31	81	3	74	38	14	26	20	1.91
1773282--1773491	3	68.0	3	72	12	149	58	3	4	32	1.37
1773632--1773710	21	3.8	21	77	5	70	36	22	16	24	1.94
1773697--1773926	20	11.5	20	81	5	232	36	24	18	19	1.94
1774609--1774655	24	2.0	24	87	8	69	25	14	21	38	1.92
1774830--1774854	12	2.1	12	100	0	50	72	0	28	0	0.86
1777151--1777410	19	14.7	19	80	16	317	45	17	21	15	1.85
1777179--1777410	52	4.3	52	91	5	383	45	16	22	15	1.84
1777179--1777410	109	2.2	104	92	4	383	45	16	22	15	1.84

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