genome.fa.s8199.2.7.7.80.10.50.1000.7.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: VEPZ01008199.1 Hibiscus syriacus cultivar Beakdansim tig00110819_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2638622

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

This is table  7  of  11  ( 1254 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)
1575473--1575509	18	2.1	18	89	0	56	32	5	10	51	1.60
1575465--1575517	24	2.2	24	86	0	70	35	3	13	47	1.61
1575778--1575864	39	2.2	39	93	0	147	49	20	13	16	1.79
1577778--1577831	21	2.6	21	77	11	56	24	12	33	29	1.92
1577968--1578009	12	3.5	12	83	0	57	66	0	2	30	1.04
1580278--1580321	22	2.0	22	95	0	79	20	13	43	22	1.87
1588200--1588231	16	2.0	16	100	0	64	25	0	25	50	1.50
1589786--1589816	16	1.9	16	93	0	53	29	6	12	51	1.65
1590316--1590357	14	2.8	16	75	17	54	33	0	0	66	0.92
1590535--1590652	29	4.1	29	78	7	125	36	1	16	45	1.57
1590528--1590654	55	2.3	55	94	0	218	37	1	15	45	1.56
1590927--1591035	22	4.5	25	75	19	106	43	0	11	44	1.45
1591067--1591105	2	20.0	2	89	5	53	48	5	0	46	1.24
1604023--1604278	135	1.9	135	87	4	374	42	18	17	20	1.89
1604944--1605228	150	1.9	150	90	1	455	43	15	22	18	1.87
1606739--1606864	41	3.0	41	82	6	173	26	12	23	36	1.91
1608338--1608395	30	1.9	30	89	0	89	44	5	12	37	1.64
1613742--1613809	29	2.3	29	82	9	84	23	4	11	60	1.49
1615173--1615229	16	3.5	16	76	23	57	75	7	1	15	1.10
1615205--1615248	21	2.1	21	83	8	54	70	6	0	22	1.11
1616741--1616770	13	2.3	13	100	0	60	0	13	0	86	0.57
1617317--1617342	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618203--1618279	37	2.1	37	85	4	102	48	1	3	46	1.28
1618419--1618462	20	2.3	18	81	11	52	22	22	6	47	1.75
1618608--1618666	32	1.9	29	83	10	73	59	1	6	32	1.34
1631959--1631996	2	19.0	2	94	0	67	52	0	0	47	1.00
1633029--1633054	5	5.2	5	100	0	52	0	19	57	23	1.40
1632974--1633572	252	2.4	238	83	11	733	26	11	20	40	1.87
1633924--1634006	18	4.7	18	80	1	87	27	26	7	38	1.82
1640304--1640686	198	1.9	197	85	4	522	27	23	25	23	2.00
1649440--1649494	20	2.8	20	100	0	110	40	23	16	20	1.91
1651401--1651560	65	2.5	63	81	6	187	30	23	18	27	1.98
1659039--1659082	21	2.1	21	86	0	61	9	40	15	34	1.79
1660071--1660280	65	3.3	63	76	9	190	31	22	18	27	1.97
1660252--1660300	19	2.6	19	84	9	57	24	28	20	26	1.99
1660121--1660300	65	2.8	63	76	12	168	30	23	18	28	1.98
1661003--1661074	21	3.4	21	81	11	85	23	19	34	22	1.96
1661493--1661533	21	2.0	21	90	0	64	36	31	14	17	1.90
1663407--1663463	22	2.6	22	82	0	78	22	19	38	19	1.93
1663631--1663682	20	2.6	20	76	11	52	26	13	23	36	1.92
1669412--1669484	31	2.4	31	83	2	85	31	15	8	45	1.75
1679830--1679882	27	2.0	26	85	3	70	13	49	5	32	1.65
1685635--1685744	11	9.9	10	71	21	60	55	0	0	44	0.99
1685646--1685737	24	3.9	24	97	1	168	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685639--1685753	48	2.4	47	85	11	162	53	0	0	46	1.00
1685986--1686072	31	2.8	30	81	8	95	41	5	8	44	1.58
1692906--1692931	2	13.0	2	100	0	52	50	0	0	50	1.00
1695262--1695317	2	28.0	2	89	7	87	50	1	0	48	1.11
1711966--1711991	7	3.7	7	100	0	52	15	0	0	84	0.62
1714327--1714375	18	2.7	18	93	0	80	24	28	20	26	1.99
1730083--1730109	5	5.4	5	100	0	54	81	18	0	0	0.69
1730121--1730145	7	3.6	7	100	0	50	60	12	16	12	1.60
1732122--1732175	28	1.9	27	85	14	74	51	0	0	48	1.00
1745898--1745934	12	3.1	12	92	0	56	35	0	2	62	1.10
1745893--1745934	18	2.3	18	83	4	57	40	0	2	57	1.12
1746962--1746999	17	2.2	17	100	0	76	18	47	23	10	1.79
1747000--1747067	29	2.3	29	80	14	86	33	1	17	47	1.57
1753696--1753740	21	2.1	21	83	0	54	31	31	24	13	1.93
1753765--1753813	22	2.2	22	78	7	55	32	28	28	10	1.90
1755348--1755430	23	3.6	23	96	0	148	16	27	27	27	1.97
1757113--1757161	25	2.0	25	95	0	89	34	6	26	32	1.81
1760364--1760424	23	2.7	23	94	0	113	16	27	27	27	1.97
1761941--1761974	17	2.0	17	88	0	50	14	44	26	14	1.84
1761984--1762050	29	2.3	30	94	2	118	32	7	16	43	1.76
1765023--1765082	21	2.9	21	94	0	102	26	28	15	30	1.96
1765220--1765272	20	2.7	20	96	0	97	37	16	5	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1765219--1765297	40	2.0	40	85	5	106	40	15	6	37	1.72
1765479--1765524	2	23.5	2	91	4	76	50	2	0	47	1.13
1772413--1772638	103	2.2	103	92	1	382	26	12	23	36	1.91
1772637--1772714	23	3.3	23	78	1	84	25	17	21	34	1.96
1779714--1779949	27	8.7	27	98	0	427	14	19	44	20	1.86
1786784--1786823	2	20.0	2	100	0	80	50	0	0	50	1.00
1786816--1786859	23	1.9	23	85	0	61	45	2	4	47	1.35
1787047--1787130	27	3.2	26	74	19	68	69	5	1	23	1.18
1787063--1787105	18	2.5	17	80	3	50	69	4	0	25	1.07
1788698--1789101	123	3.3	123	93	0	673	27	19	13	39	1.89
1788997--1789185	84	2.2	84	95	0	333	28	16	15	39	1.89
1789296--1789480	37	5.1	37	66	2	149	37	12	18	31	1.88
1789270--1789484	73	2.9	73	94	1	369	36	13	19	31	1.89
1789282--1789480	36	5.5	37	66	3	125	37	13	19	29	1.90
1790162--1790221	22	2.7	22	92	5	86	36	13	13	36	1.84
1797801--1797872	36	2.0	36	88	0	108	29	11	20	38	1.87
1798762--1798798	2	18.5	2	100	0	74	51	0	0	48	1.00
1799311--1799360	2	27.5	2	81	18	65	50	0	0	50	1.00
1799323--1799358	18	2.0	18	100	0	72	50	0	0	50	1.00
1799325--1799375	18	2.8	18	85	5	50	49	0	1	49	1.12
1799337--1799564	118	1.9	117	87	5	332	46	6	7	39	1.58
1800930--1800977	14	3.6	14	86	5	64	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800930--1800974	12	3.7	12	87	3	63	48	0	0	51	1.00
1805043--1805303	139	1.9	139	99	0	513	37	10	10	40	1.74
1815312--1815363	21	2.5	21	81	3	61	38	19	25	17	1.93
1815352--1815486	20	6.7	20	80	7	121	32	25	17	24	1.97
1815349--1815480	61	2.2	61	84	0	174	34	25	16	23	1.95
1815352--1815486	41	3.3	40	73	12	123	32	25	17	24	1.97
1815654--1815697	22	2.0	22	90	0	70	20	43	15	20	1.88
1817338--1817382	18	2.5	18	88	0	72	26	44	15	13	1.83
1817875--1817919	20	2.3	20	84	3	65	37	20	24	17	1.93
1817919--1817976	14	3.9	14	77	16	62	48	22	17	12	1.80
1817903--1817993	32	2.8	33	93	3	157	47	20	18	13	1.82
1818010--1818100	14	5.9	14	74	20	83	10	17	23	48	1.79
1818005--1818116	33	3.4	33	97	1	208	11	18	22	47	1.81
1818110--1818156	20	2.3	20	88	0	67	17	21	25	36	1.94
1820027--1820062	14	2.6	14	90	0	54	30	0	22	47	1.52
1820189--1820263	19	4.6	16	81	15	59	46	17	21	14	1.83
1820199--1820266	19	3.8	19	85	14	101	47	17	22	13	1.82
1820293--1820380	20	4.4	20	80	5	115	15	21	23	38	1.92
1820273--1820360	40	2.4	36	83	12	108	15	20	21	42	1.89
1820670--1820721	20	2.5	21	87	3	70	21	23	17	38	1.93
1820918--1820951	12	2.9	12	86	4	52	17	41	5	35	1.74
1821506--1821559	24	2.2	24	90	0	81	22	16	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1824050--1824108	19	3.4	19	73	22	74	45	18	22	13	1.84
1824237--1824273	14	2.6	14	91	0	65	45	24	0	29	1.53
1825630--1825835	42	4.9	41	72	9	155	22	17	37	21	1.94
1825660--1825835	84	2.1	84	97	0	334	23	17	38	21	1.93
1826054--1826238	91	2.0	90	90	6	291	47	18	11	22	1.81
1827974--1828065	14	5.9	14	72	22	76	42	22	25	9	1.84
1827950--1828079	33	3.9	33	91	3	190	43	20	23	11	1.85
1828080--1828160	19	4.5	19	74	16	73	11	17	24	46	1.80
1828679--1828731	20	2.7	20	90	0	79	26	18	28	26	1.98
1828744--1828813	20	3.5	20	92	3	115	27	17	24	31	1.97

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