genome.fa.s2.2.7.7.80.10.50.1000.7.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

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

This is table  7  of  10  ( 1119 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)
1621490--1621528	20	2.0	20	94	0	69	17	12	20	48	1.80
1621452--1621569	54	2.2	54	89	3	175	21	11	20	46	1.82
1621498--1621544	20	2.3	20	85	0	58	25	12	23	38	1.90
1623426--1623521	21	4.6	21	90	3	133	23	15	39	20	1.91
1623427--1623574	42	3.6	42	79	3	158	27	13	37	21	1.91
1623534--1623572	20	1.9	21	94	5	71	30	7	35	25	1.84
1623857--1624055	21	9.5	21	72	9	138	34	32	12	21	1.91
1623857--1624029	63	2.7	63	79	5	163	32	32	13	20	1.91
1624147--1624291	42	3.5	42	85	2	188	20	13	40	25	1.90
1624147--1624312	42	4.0	41	85	5	167	22	13	37	25	1.91
1625750--1625802	13	4.2	13	83	16	76	37	0	13	49	1.42
1625756--1625801	23	2.0	23	100	0	92	34	0	13	52	1.40
1627670--1627728	22	2.8	21	78	12	66	23	22	33	20	1.97
1631478--1631699	117	1.9	117	83	5	288	28	15	9	47	1.75
1634423--1634455	14	2.3	15	84	10	50	48	24	12	15	1.78
1634441--1634555	60	1.9	60	89	7	180	35	16	16	31	1.91
1634458--1634555	20	4.9	20	77	7	101	34	15	16	33	1.90
1634548--1634642	20	5.1	20	71	14	94	17	13	21	47	1.82
1634585--1634672	34	2.6	34	85	5	126	21	12	22	43	1.86
1635039--1635084	22	2.0	21	84	12	56	28	13	43	15	1.83
1635021--1635075	22	2.5	22	87	0	74	25	16	40	18	1.91
1635160--1635270	20	5.6	20	76	10	93	39	10	19	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1635160--1635271	40	2.8	40	77	6	111	39	10	19	30	1.86
1635188--1635291	40	2.6	40	81	4	111	38	13	19	28	1.89
1638268--1638334	33	2.2	32	84	10	86	41	0	0	58	0.98
1638283--1638347	17	3.8	17	73	20	55	41	0	0	58	0.98
1640054--1640101	21	2.3	21	85	0	60	27	39	12	20	1.89
1640105--1640219	21	5.5	21	81	10	128	20	33	24	21	1.97
1640111--1640219	42	2.6	42	91	2	166	21	32	23	22	1.98
1640620--1640721	32	3.2	33	80	9	111	57	4	2	34	1.35
1645133--1645163	2	15.5	2	100	0	62	48	0	0	51	1.00
1645484--1645530	21	2.2	21	100	0	94	27	17	19	36	1.93
1645656--1645722	33	2.1	32	83	8	82	64	5	0	29	1.17
1645788--1645814	2	13.5	2	100	0	54	51	0	0	48	1.00
1645845--1645875	15	2.1	15	93	0	53	48	3	0	48	1.17
1646091--1646138	24	2.0	24	88	8	71	41	6	2	50	1.39
1646358--1646403	16	2.9	16	76	17	51	32	2	0	65	1.05
1647684--1648039	176	2.0	175	91	1	570	45	7	3	43	1.50
1648377--1648410	17	2.1	17	88	5	52	32	0	0	67	0.91
1648367--1648460	42	2.3	39	82	10	116	28	2	4	64	1.23
1649167--1649196	2	15.0	2	100	0	60	50	0	0	50	1.00
1649377--1649434	27	2.1	29	84	12	77	75	0	1	22	0.89
1649377--1649434	21	2.8	21	87	10	75	75	0	1	22	0.89
1649405--1649434	10	2.8	11	90	10	53	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1650129--1650195	34	2.0	34	93	0	116	32	14	11	40	1.83
1650726--1651557	105	8.0	105	91	2	1255	22	17	26	34	1.96
1652159--1652352	68	2.9	67	83	6	232	35	9	22	32	1.86
1652159--1652588	65	6.3	67	73	12	236	38	11	20	29	1.88
1652328--1652608	36	8.0	35	77	12	263	40	13	19	25	1.89
1652276--1652589	138	2.3	137	84	1	423	39	13	20	26	1.89
1652364--1652552	102	1.9	103	87	2	283	40	13	19	26	1.88
1652470--1652642	36	4.8	36	85	4	163	40	15	20	23	1.91
1653537--1653585	22	2.2	22	92	0	80	28	14	24	32	1.94
1653549--1653592	22	2.0	22	86	0	61	31	13	22	31	1.93
1654222--1654267	16	2.8	17	80	6	51	0	17	8	73	1.07
1658365--1658433	34	2.0	34	91	0	111	33	13	11	42	1.80
1659689--1659734	3	16.0	3	91	8	78	32	0	0	67	0.91
1659689--1659733	17	2.6	17	92	0	81	31	0	0	68	0.89
1659689--1659734	14	3.2	14	90	3	74	32	0	0	67	0.91
1659700--1659746	20	2.4	20	89	3	69	36	0	0	63	0.94
1661021--1661390	151	2.5	151	80	8	357	39	7	7	46	1.60
1663733--1663779	11	4.3	11	82	17	62	23	17	0	59	1.37
1663740--1663779	21	1.9	22	90	10	66	25	17	0	57	1.40
1666037--1666181	73	2.0	72	94	4	256	25	21	19	33	1.97
1668214--1668368	79	1.9	81	86	2	224	40	15	18	26	1.90
1668651--1668756	54	2.0	54	90	3	169	36	14	23	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669554--1669998	123	3.6	123	88	1	622	40	14	19	26	1.90
1669913--1670274	139	2.6	137	83	6	446	39	13	19	27	1.90
1671827--1671864	2	19.5	2	94	5	69	50	0	0	50	1.00
1673144--1673173	9	3.4	9	90	9	53	80	0	0	20	0.72
1674441--1674482	22	1.9	22	85	0	57	50	4	2	42	1.36
1675814--1675881	34	2.0	34	100	0	136	55	17	8	17	1.66
1679825--1679895	22	3.2	22	67	13	56	54	2	19	22	1.57
1686811--1686912	9	11.5	8	71	15	60	76	5	3	13	1.11
1688955--1689010	19	3.4	19	64	35	56	50	3	7	39	1.47
1688944--1689036	30	3.1	30	96	0	168	52	2	5	39	1.36
1689003--1689048	22	2.1	22	91	0	74	56	0	2	41	1.11
1689009--1689059	22	2.3	22	96	0	93	50	0	5	43	1.26
1689866--1689901	18	1.9	19	88	5	56	58	16	5	19	1.58
1692668--1692730	30	2.2	30	85	5	85	39	1	6	52	1.37
1692887--1692923	19	1.9	19	100	0	74	43	13	0	43	1.44
1694507--1694645	67	2.0	70	82	8	169	22	18	18	40	1.92
1695834--1695899	19	3.4	19	85	6	87	53	0	6	40	1.26
1695833--1695925	19	4.3	22	76	13	70	52	0	6	40	1.27
1696842--1696879	17	2.2	17	95	0	67	47	5	18	28	1.70
1702052--1702127	3	26.0	3	76	10	68	42	0	0	57	0.98
1702130--1702164	11	3.2	11	91	0	52	80	0	0	20	0.72
1702127--1702166	14	2.9	14	88	3	55	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1703530--1703576	16	2.9	16	78	15	53	34	4	0	61	1.15
1703750--1703799	23	2.0	26	85	11	70	46	2	0	52	1.12
1707648--1707694	15	3.1	15	96	0	85	29	19	6	44	1.75
1709979--1710039	26	2.3	26	97	0	113	49	21	16	13	1.79
1711500--1711524	11	2.3	11	100	0	50	16	8	0	76	1.02
1715054--1715121	8	8.0	8	82	11	66	83	2	13	0	0.75
1715050--1715120	9	8.1	9	79	14	78	84	2	12	0	0.73
1715053--1715112	12	5.4	12	88	9	67	85	3	11	0	0.72
1715049--1715120	32	2.4	30	88	6	101	83	2	13	0	0.76
1716390--1716626	115	2.1	115	90	1	361	34	15	20	29	1.93
1717341--1717665	113	2.9	113	91	0	490	37	14	17	29	1.90
1717454--1717815	186	1.9	186	88	1	537	36	14	17	31	1.90
1717567--1717738	73	2.4	73	83	2	193	35	15	15	33	1.90
1717309--1717963	299	2.2	298	92	1	1073	36	15	17	30	1.91
1717640--1718012	113	3.4	110	83	6	439	37	14	18	30	1.90
1717933--1718225	124	2.4	124	83	7	343	42	15	18	23	1.88
1718381--1718444	3	21.3	3	82	6	67	43	0	0	56	0.99
1718364--1718444	15	5.4	15	82	8	103	43	0	0	56	0.99
1718443--1718472	14	2.1	14	93	0	51	73	0	0	26	0.84
1720050--1720099	23	2.0	26	85	11	70	46	2	0	52	1.12
1723160--1723538	45	9.4	44	71	18	172	31	23	10	34	1.88
1723148--1723301	79	1.9	79	84	2	202	33	21	9	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1723160--1723538	124	3.1	121	86	6	549	31	23	10	34	1.88
1723314--1723493	34	4.9	34	77	14	180	29	22	10	37	1.87
1723281--1723454	79	2.2	79	91	2	296	32	24	10	33	1.89
1723314--1723572	113	2.3	113	91	0	410	30	22	10	37	1.87
1723434--1723606	79	2.2	79	93	0	292	31	21	10	36	1.87
1724044--1724117	22	3.5	22	92	3	116	27	27	14	31	1.95
1724037--1724137	44	2.5	39	73	21	98	25	32	11	29	1.92
1724153--1724191	20	2.1	18	86	13	53	25	23	17	33	1.96
1728814--1729104	34	7.6	34	67	22	141	30	23	10	36	1.88
1728755--1729216	79	5.9	79	91	0	703	29	22	10	36	1.89

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