genome.fa.s6564.2.7.7.80.10.50.1000.7.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: VEPZ01006564.1 Hibiscus syriacus cultivar Beakdansim tig00016065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1886890

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 894 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)
1529255--1529336	40	2.0	40	100	0	164	32	26	17	23	1.96
1536053--1536178	47	2.8	45	84	5	155	29	22	7	40	1.82
1536283--1536364	40	2.0	40	100	0	164	32	26	17	23	1.96
1542142--1542199	30	1.9	30	82	6	73	39	6	20	32	1.79
1547027--1547155	62	2.1	62	95	1	233	37	13	23	26	1.91
1547406--1547442	20	1.9	19	89	10	58	45	13	24	16	1.83
1553416--1553469	23	2.3	23	90	0	81	38	25	22	12	1.90
1553440--1553484	16	2.8	16	89	0	63	40	22	24	13	1.90
1564625--1564770	35	4.2	36	82	11	171	42	9	8	39	1.69
1564629--1564770	17	8.2	17	69	5	79	43	9	9	38	1.68
1564629--1564770	68	2.1	70	85	7	193	43	9	9	38	1.68
1565116--1565141	2	13.0	2	100	0	52	50	0	0	50	1.00
1570445--1570559	51	2.3	51	87	0	167	50	9	5	34	1.57
1577412--1577450	19	2.0	19	85	5	51	38	0	7	53	1.30
1578432--1578680	124	2.0	125	99	0	491	36	8	11	43	1.72
1581643--1581768	60	2.1	60	96	0	234	32	6	16	44	1.73
1583419--1583448	15	2.0	15	100	0	60	20	33	6	40	1.78
1583547--1583586	17	2.3	18	87	12	57	27	0	7	65	1.20
1590011--1590047	18	2.1	18	100	0	74	27	43	13	16	1.85
1598484--1598534	25	2.0	25	88	7	77	27	13	19	39	1.90
1598821--1598858	19	2.1	19	85	9	53	57	5	18	18	1.58
1602952--1602991	13	3.1	13	85	0	62	22	27	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610275--1610311	18	2.1	18	100	0	74	21	21	16	40	1.91
1616230--1616320	29	3.2	29	95	1	166	47	15	10	26	1.78
1620725--1620768	3	15.3	3	86	9	65	63	0	0	36	0.95
1621524--1621555	11	2.8	12	86	13	50	37	37	0	25	1.56
1622756--1622869	42	2.8	41	80	5	113	31	19	24	24	1.98
1622734--1623350	240	2.6	239	84	2	817	36	18	16	28	1.93
1623352--1623632	56	4.9	57	82	5	282	40	18	10	30	1.84
1623407--1623614	56	3.7	56	88	1	283	41	19	10	29	1.84
1623352--1623775	56	7.6	55	79	7	209	40	18	10	31	1.84
1628095--1628164	23	3.0	23	85	0	95	18	25	24	31	1.98
1629479--1629524	24	1.9	24	90	0	74	17	23	23	34	1.96
1629641--1629675	18	1.9	18	100	0	70	34	0	28	37	1.58
1629649--1629678	15	2.0	15	93	0	51	36	0	26	36	1.57
1633248--1633288	19	2.2	18	86	4	55	17	34	31	17	1.93
1638661--1638803	76	1.9	75	94	1	250	18	23	30	27	1.98
1642028--1642106	2	39.5	2	100	0	158	50	0	0	49	1.00
1646730--1646813	42	2.0	42	95	0	150	20	34	8	36	1.83
1648253--1648302	19	2.9	16	72	16	55	24	12	16	48	1.79
1648293--1648368	30	2.5	30	95	0	134	39	5	17	38	1.72
1648469--1648513	23	2.0	23	95	0	81	13	28	26	31	1.94
1648479--1648529	23	2.2	23	85	0	66	17	25	21	35	1.95
1650717--1650761	15	3.0	15	90	0	72	60	13	11	15	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1670530--1670563	16	2.1	17	88	5	52	73	0	5	20	1.04
1671606--1671647	14	2.9	14	85	3	57	69	0	0	30	0.89
1671606--1671674	29	2.3	31	87	5	97	65	2	0	31	1.08
1671618--1671675	19	2.8	20	76	23	59	63	3	0	32	1.11
1671615--1671675	12	5.7	11	73	23	51	63	3	0	32	1.10
1671681--1671749	23	3.2	20	80	15	75	46	8	0	44	1.34
1671681--1671749	22	3.2	22	88	10	90	46	8	0	44	1.34
1671690--1671769	23	3.5	23	83	16	96	45	11	1	42	1.48
1671738--1671917	36	4.8	38	79	11	176	47	10	2	39	1.50
1671738--1671917	75	2.4	75	83	5	213	47	10	2	39	1.50
1673166--1673220	24	2.3	24	75	6	58	43	16	18	21	1.88
1673328--1673378	14	3.5	14	74	10	57	45	17	9	27	1.80
1673331--1673390	30	2.0	30	100	0	120	43	16	13	26	1.85
1678863--1679030	57	2.9	57	95	0	300	21	22	23	32	1.98
1681760--1682096	168	2.0	167	96	0	620	36	17	16	29	1.92
1683875--1684515	314	2.0	313	93	1	1088	35	20	14	29	1.92
1685118--1685493	5	73.6	5	75	16	262	40	0	3	55	1.23
1686729--1686774	21	2.2	20	88	3	65	26	4	2	67	1.21
1687795--1687924	31	4.5	29	74	14	117	54	0	1	43	1.15
1687844--1687937	31	2.8	34	75	19	108	53	0	1	45	1.07
1688569--1688698	50	2.6	50	93	4	219	33	15	15	36	1.89
1688563--1688699	24	5.5	24	80	11	152	32	16	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688681--1688718	20	1.9	20	94	0	67	44	10	10	34	1.73
1696110--1696162	21	2.5	21	81	6	72	20	26	18	33	1.96
1696152--1696196	21	2.1	21	91	0	72	35	15	24	24	1.94
1696190--1696327	41	3.4	41	77	2	143	35	24	15	23	1.94
1696193--1696307	20	5.7	20	77	6	88	33	26	16	24	1.96
1696500--1696543	22	2.0	22	90	0	70	20	43	15	20	1.88
1697001--1697055	25	2.2	24	78	15	58	20	9	18	52	1.71
1698185--1698232	18	2.7	18	93	0	87	27	45	12	14	1.81
1698773--1698839	20	3.4	20	81	2	73	38	23	22	14	1.92
1698773--1698896	19	6.7	19	78	11	105	43	21	20	13	1.87
1698898--1698954	19	3.3	19	72	23	70	14	19	21	45	1.85
1698941--1698993	20	2.7	20	93	0	88	15	22	24	37	1.92
1698961--1699019	20	3.0	20	87	0	73	23	15	25	35	1.94
1699356--1699446	41	2.2	42	84	2	121	21	39	15	23	1.91
1700856--1700894	14	2.8	14	84	0	51	35	0	17	46	1.49
1701031--1701117	19	4.8	19	84	10	121	49	17	19	13	1.79
1701021--1701117	38	2.8	33	81	14	131	48	18	19	13	1.81
1701144--1701251	20	5.4	20	80	6	121	15	20	23	40	1.90
1701521--1701572	20	2.5	21	81	3	61	23	23	15	38	1.92
1701769--1701802	12	2.9	12	86	4	52	17	41	5	35	1.74
1702357--1702410	24	2.2	24	90	0	81	22	16	20	40	1.91
1702585--1702609	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1704896--1704958	33	1.9	33	93	0	108	42	20	23	12	1.86
1704896--1704960	19	3.7	19	68	19	59	44	20	23	12	1.84
1704956--1705032	19	4.3	19	78	18	85	12	16	24	45	1.83
1704971--1705097	33	3.8	33	89	2	184	11	20	21	46	1.82
1705006--1705097	19	5.4	19	65	24	60	13	21	18	46	1.82
1706906--1707090	91	2.0	90	89	6	282	47	18	11	22	1.81
1708775--1708834	20	3.0	20	80	0	66	48	18	20	13	1.81
1708799--1708961	33	4.9	33	92	0	245	45	21	22	11	1.83
1708856--1708944	14	5.6	14	69	23	61	43	21	24	10	1.83
1708869--1708966	19	5.7	19	69	22	90	44	20	23	11	1.83
1708962--1709006	19	2.4	19	92	0	72	8	17	26	46	1.78
1709358--1709413	22	2.5	22	100	0	112	26	12	44	16	1.83
1709583--1709694	20	5.6	20	82	4	64	20	21	20	37	1.94
1709601--1709694	20	4.7	20	85	2	107	19	22	19	39	1.93
1709601--1709694	41	2.3	40	83	3	116	19	22	19	39	1.93
1709691--1709746	20	2.7	21	80	5	69	42	16	21	19	1.89
1709690--1709756	21	3.2	21	78	4	73	38	16	22	22	1.92
1715720--1715758	3	13.0	3	100	0	78	33	0	0	66	0.92
1716004--1716306	140	2.2	140	86	3	412	28	11	12	47	1.76
1717378--1717427	2	25.0	2	100	0	100	50	0	0	50	1.00
1718360--1718403	20	2.2	20	91	0	70	38	15	2	43	1.60
1746050--1746097	22	2.2	22	85	7	62	27	16	20	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1746068--1746114	22	2.1	22	84	11	60	27	21	23	27	1.99
1750795--1750865	35	2.0	35	100	0	142	35	8	36	19	1.82
1751015--1751073	26	2.3	26	90	0	91	67	0	5	27	1.11
1756170--1756212	12	3.5	12	78	6	50	62	0	11	25	1.29
1756760--1756826	29	2.3	29	84	5	91	65	2	7	23	1.32
1761496--1761548	20	2.7	20	93	0	88	22	18	30	28	1.98
1768282--1768647	44	8.3	44	66	11	174	25	20	21	32	1.97
1768228--1768592	130	2.8	130	87	4	502	27	19	21	31	1.97
1768545--1768642	50	2.0	50	95	0	178	20	22	23	33	1.97
1769104--1769194	33	2.8	33	96	1	166	39	13	18	28	1.88

Tables:   1   2   3   4   5   6   7   8