genome.fa.s260.2.7.7.80.10.50.1000.8.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  8  of  26  ( 3102 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)
1521867--1522017	72	2.1	72	100	0	302	42	13	14	29	1.84
1521868--1521981	37	3.1	37	63	22	96	42	13	14	29	1.83
1524477--1524531	24	2.3	25	87	6	78	30	14	30	23	1.94
1525693--1525761	34	2.0	34	100	0	138	42	8	20	28	1.82
1530059--1530122	25	2.6	25	92	0	101	45	15	12	26	1.82
1530804--1530913	44	2.5	44	86	2	150	30	20	19	30	1.97
1531286--1531417	46	2.9	46	83	2	158	31	18	20	29	1.96
1531302--1531444	46	3.2	45	81	4	137	30	18	20	30	1.97
1532677--1532748	22	3.3	23	76	9	71	6	16	0	76	0.99
1532677--1532737	16	3.6	17	77	6	61	6	14	0	78	0.94
1532677--1532746	6	12.2	6	77	13	58	5	15	0	78	0.93
1544040--1544082	23	1.9	22	85	4	59	6	25	4	62	1.40
1544469--1544515	3	15.7	3	82	8	60	65	0	0	34	0.93
1555901--1555944	24	1.9	22	86	9	61	18	13	0	68	1.22
1561577--1561621	23	2.0	23	86	0	63	64	4	8	22	1.40
1569140--1569185	23	2.0	23	83	8	58	58	10	0	30	1.32
1577999--1578062	23	2.8	22	76	9	65	34	21	26	17	1.95
1581931--1581971	20	2.0	20	100	0	82	41	4	14	39	1.67
1585754--1585792	20	2.0	20	89	0	60	33	23	10	33	1.88
1589057--1589396	169	2.0	171	98	1	666	38	19	17	24	1.93
1590922--1591115	97	2.0	97	100	0	388	32	22	10	34	1.88
1596141--1596269	60	2.1	60	84	4	161	39	13	11	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1598702--1598746	23	2.0	23	81	0	54	42	6	15	35	1.73
1598662--1598824	87	1.9	87	90	0	263	42	11	12	33	1.78
1599271--1599323	25	2.1	25	100	0	106	22	13	24	39	1.90
1599423--1600592	201	5.8	198	81	5	1296	31	16	13	38	1.87
1599426--1600592	400	2.9	398	84	5	1460	31	16	13	38	1.87
1599423--1600592	601	1.9	603	84	5	1562	31	16	13	38	1.87
1600593--1600632	15	2.7	15	88	0	53	37	7	17	37	1.78
1602094--1602135	3	14.0	3	89	0	66	33	30	0	35	1.58
1603120--1603433	145	2.2	141	82	11	386	48	7	6	37	1.57
1605559--1605637	3	27.7	3	77	12	78	31	1	1	65	1.08
1606057--1606098	11	3.8	11	81	9	50	78	2	16	2	0.96
1610482--1610553	35	2.1	35	89	0	108	27	12	8	51	1.68
1611941--1612063	14	10.2	12	70	21	64	77	0	17	4	0.99
1611943--1612049	21	5.2	20	73	21	78	77	0	15	5	1.00
1611944--1612078	6	21.3	6	68	22	55	75	0	19	4	1.02
1611943--1612066	12	10.2	13	76	16	81	76	0	17	4	1.00
1611942--1612049	20	5.2	20	80	13	87	77	0	15	5	1.00
1612001--1612078	34	2.1	38	84	11	101	74	1	23	1	0.97
1613590--1613663	36	2.1	36	82	5	87	28	12	16	43	1.83
1613626--1614362	45	16.7	45	77	8	622	22	14	19	42	1.88
1613759--1613829	36	2.0	36	91	0	115	22	15	21	40	1.90
1613589--1614316	171	4.2	170	77	10	618	23	14	18	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615434--1615477	17	2.5	17	81	3	52	40	0	11	47	1.39
1622248--1622287	21	1.9	21	89	0	62	32	12	15	40	1.84
1630032--1630149	54	2.2	54	82	8	134	27	17	20	34	1.95
1640135--1640176	17	2.4	18	80	4	50	40	0	11	47	1.40
1641824--1641862	2	19.5	2	100	0	78	48	0	0	51	1.00
1643341--1643661	131	2.5	130	87	4	434	30	21	18	29	1.97
1643593--1643687	43	2.1	45	84	5	122	25	26	17	30	1.98
1643619--1643707	46	2.0	45	88	2	133	23	23	19	33	1.97
1643680--1643922	131	1.9	131	84	1	335	30	18	17	33	1.95
1643680--1643960	131	2.2	132	81	3	318	30	18	17	34	1.94
1644125--1644195	3	24.0	3	77	8	74	32	2	0	64	1.08
1649387--1649804	209	2.0	209	100	0	836	42	6	23	27	1.79
1656500--1656557	21	2.7	21	89	7	82	24	20	29	25	1.99
1659634--1659661	2	14.0	2	100	0	56	0	50	0	50	1.00
1661609--1661660	20	2.6	20	87	0	77	26	7	21	44	1.79
1661629--1662275	112	5.8	112	90	0	956	30	12	12	45	1.78
1661629--1662275	223	2.9	224	88	1	951	30	12	12	45	1.78
1661629--1662275	335	1.9	336	88	1	985	30	12	12	45	1.78
1662366--1662594	71	3.2	72	87	4	322	37	12	10	39	1.79
1662391--1662598	72	2.9	70	84	7	267	37	12	11	38	1.80
1662813--1662862	23	2.2	23	85	0	64	30	16	14	40	1.87
1662677--1663127	158	2.9	155	84	6	560	34	10	11	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1683167--1683191	4	6.2	4	100	0	50	0	0	24	76	0.80
1683708--1683860	76	2.0	76	100	0	306	32	27	22	17	1.96
1685657--1685689	17	1.9	18	88	11	52	9	9	12	69	1.36
1693566--1694632	259	4.1	260	84	5	1277	32	16	16	34	1.91
1693566--1694632	520	2.1	518	84	4	1411	32	16	16	34	1.91
1695585--1695620	12	3.0	12	87	0	54	30	8	25	36	1.85
1695612--1695676	23	2.8	23	97	2	121	41	4	26	27	1.75
1702488--1702523	12	3.0	12	87	0	54	30	8	25	36	1.85
1702515--1702579	23	2.8	23	97	2	121	41	4	26	27	1.75
1703361--1703479	39	3.1	38	70	15	100	40	15	8	35	1.78
1704073--1704270	81	2.4	81	85	3	245	44	5	5	43	1.50
1704222--1704334	36	3.2	35	75	17	117	49	3	6	40	1.45
1707673--1707907	115	2.1	114	81	7	271	45	13	6	34	1.70
1707611--1707907	57	5.2	56	76	11	228	45	12	7	35	1.69
1708921--1709097	35	5.0	35	69	21	109	49	2	6	41	1.42
1708913--1709091	71	2.5	70	81	11	204	50	2	6	40	1.39
1710834--1710924	10	9.3	10	70	15	57	59	1	2	37	1.17
1710843--1710925	18	4.4	19	75	18	68	57	1	2	38	1.19
1710836--1710924	39	2.3	39	78	7	101	58	1	2	38	1.18
1710836--1710923	19	4.5	19	73	18	58	59	1	2	37	1.18
1715768--1715826	30	2.0	30	96	0	109	66	6	10	16	1.43
1716150--1716182	14	2.3	15	89	5	50	57	15	9	18	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1716384--1716416	2	16.5	2	100	0	66	51	0	48	0	1.00
1717348--1717405	3	19.3	3	87	7	82	65	3	0	31	1.09
1717404--1717441	3	12.7	3	88	0	58	39	0	0	60	0.97
1717387--1717444	6	9.7	6	94	0	53	48	0	0	51	1.00
1717618--1717938	160	2.0	160	96	0	588	25	18	32	24	1.97
1717927--1718083	40	3.8	39	72	17	118	24	18	35	22	1.96
1717934--1718097	87	1.9	87	84	2	222	25	20	31	22	1.98
1718241--1718309	36	1.9	35	85	2	93	39	11	17	31	1.85
1718358--1718450	37	2.5	37	84	5	118	38	11	19	30	1.87
1725254--1725324	24	2.8	25	87	10	101	1	12	8	77	1.05
1725269--1725329	24	2.6	24	94	2	106	0	13	6	80	0.90
1725269--1725343	24	3.2	23	86	5	71	0	16	8	76	1.02
1725269--1725343	23	3.2	23	76	12	64	0	16	8	76	1.02
1725865--1725893	3	9.7	3	100	0	58	65	0	0	34	0.93
1727084--1727148	2	32.5	2	96	0	121	47	1	0	50	1.10
1731060--1731100	3	14.0	3	94	5	75	68	0	0	31	0.90
1731350--1732197	131	6.4	130	77	7	667	29	17	20	31	1.96
1731300--1732202	261	3.4	261	80	7	941	30	17	20	31	1.96
1733094--1733132	19	2.1	19	85	9	53	53	10	2	33	1.48
1734890--1735049	87	1.8	87	83	2	214	24	16	24	34	1.96
1735966--1735998	4	8.2	4	90	10	50	24	0	0	75	0.80
1735966--1735998	11	2.8	12	90	9	50	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1745114--1745139	2	13.0	2	100	0	52	50	0	0	50	1.00
1745376--1745498	24	4.4	28	74	16	82	76	0	17	5	1.02
1745397--1745501	16	7.1	14	74	15	70	79	0	17	2	0.91
1745406--1745510	7	14.1	7	71	18	61	79	0	17	2	0.91
1745398--1745509	12	9.9	11	77	15	88	78	0	17	2	0.92
1745413--1745489	25	3.2	24	83	7	104	80	1	14	3	0.92
1745413--1745510	38	2.6	36	80	11	99	78	1	17	3	0.93
1746919--1747452	73	7.3	73	88	3	610	29	20	13	36	1.91
1746971--1747452	36	13.1	36	65	11	199	29	21	13	35	1.91
1747727--1748221	136	3.7	136	84	3	622	35	17	20	26	1.95

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