genome.fa.s8745.2.7.7.80.10.50.1000.7.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: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1915556

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 927 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)
1480794--1480829	14	2.6	14	91	4	56	33	0	0	66	0.92
1482478--1482536	16	3.8	16	84	4	84	35	13	8	42	1.75
1482936--1482993	8	7.4	8	73	11	57	13	3	1	81	0.91
1483563--1483605	22	2.0	21	82	13	52	51	11	4	32	1.59
1484192--1484311	60	2.0	60	81	3	143	32	15	5	45	1.70
1484226--1484344	60	2.0	60	81	3	141	34	19	5	41	1.73
1485311--1485406	2	52.5	2	66	17	57	46	0	0	53	1.00
1485315--1485402	36	2.4	37	86	3	133	46	0	0	53	1.00
1489031--1489087	24	2.4	25	72	24	59	63	1	0	35	1.05
1489405--1489449	15	3.1	14	80	3	54	48	0	33	17	1.48
1492865--1492897	2	16.5	2	100	0	66	51	0	0	48	1.00
1495916--1496183	132	2.0	132	97	0	509	45	18	9	26	1.79
1500111--1500174	26	2.4	27	89	2	94	39	28	14	18	1.90
1514810--1514862	17	2.9	19	83	11	83	35	18	15	30	1.92
1521690--1521732	22	2.0	21	86	8	61	74	0	0	25	0.82
1526409--1526470	31	2.0	32	83	3	81	59	9	8	22	1.55
1534587--1534621	18	1.9	18	88	0	52	60	5	22	11	1.52
1540070--1540265	98	2.0	98	95	2	358	28	17	29	25	1.98
1541293--1541352	3	19.3	3	77	13	59	41	0	0	58	0.98
1541293--1541356	16	3.9	16	84	10	76	43	0	0	56	0.99
1541299--1541356	13	4.8	13	76	18	63	43	0	0	56	0.99
1541309--1541363	19	3.1	18	82	12	69	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541554--1541586	15	2.2	16	89	10	52	24	0	6	69	1.10
1542313--1542341	2	14.5	2	100	0	58	51	0	0	48	1.00
1543371--1543395	9	2.8	9	100	0	50	48	12	8	32	1.69
1547670--1547700	16	1.9	16	93	0	53	54	0	0	45	0.99
1554597--1554638	15	2.7	15	85	10	50	35	0	2	61	1.09
1554729--1554789	26	2.3	26	86	8	88	60	6	3	29	1.38
1556198--1556232	2	17.5	2	100	0	70	48	0	51	0	1.00
1558007--1558081	31	2.4	31	88	4	116	53	14	10	21	1.71
1563484--1564173	343	2.0	343	99	0	1362	35	17	21	25	1.95
1578483--1578520	19	2.0	20	94	5	69	28	15	28	26	1.96
1578488--1578646	63	2.5	62	86	4	203	32	19	22	26	1.97
1579351--1579414	30	2.1	30	82	5	76	18	17	26	37	1.93
1582824--1582861	19	2.0	20	94	5	69	28	15	28	26	1.96
1582829--1582987	63	2.5	62	86	4	203	32	19	22	26	1.97
1589268--1589342	37	2.0	37	100	0	150	18	16	5	60	1.54
1589273--1589333	20	3.2	20	69	21	67	16	18	3	62	1.46
1596659--1596693	6	5.8	6	93	0	61	28	2	34	34	1.72
1605693--1605745	21	2.4	23	84	9	67	28	0	9	62	1.26
1606537--1606614	31	2.5	32	75	10	79	51	7	3	37	1.49
1617010--1617062	21	2.5	21	93	0	88	37	24	20	16	1.93
1618363--1618444	34	2.6	31	82	7	94	23	19	39	18	1.93
1618362--1618432	34	2.1	34	91	0	115	25	18	38	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618585--1618686	50	2.0	50	98	0	195	26	1	14	56	1.49
1619241--1619318	30	2.6	30	93	0	129	17	42	20	19	1.90
1623186--1623210	2	12.5	2	100	0	50	52	0	0	48	1.00
1623689--1623726	16	2.3	17	90	4	60	26	2	0	71	1.00
1624129--1624187	22	2.6	22	82	10	66	42	1	1	54	1.20
1624128--1624187	23	2.6	23	84	10	70	41	1	1	55	1.20
1625063--1625110	23	2.1	23	88	0	69	35	12	18	33	1.89
1625484--1625537	23	2.5	20	75	18	54	42	18	1	37	1.61
1625499--1625561	23	2.7	23	90	0	90	38	19	6	36	1.77
1625222--1626085	427	2.0	426	98	1	1671	38	13	8	39	1.75
1625911--1625964	23	2.5	20	75	18	54	42	18	1	37	1.61
1625926--1625988	23	2.7	23	90	0	90	38	19	6	36	1.77
1628541--1629395	184	4.7	184	98	0	1640	34	15	15	35	1.89
1630762--1630812	3	17.0	3	83	0	66	25	33	3	37	1.74
1630762--1630824	12	5.2	12	90	0	81	23	33	6	36	1.80
1630766--1630827	18	3.4	18	88	0	88	20	33	6	38	1.79
1630766--1630827	6	10.3	6	83	0	61	20	33	6	38	1.79
1632286--1633505	200	6.1	198	95	1	2149	32	15	14	36	1.88
1633571--1633650	38	2.1	38	83	2	99	55	10	2	32	1.47
1633587--1633650	19	3.4	19	95	0	110	56	9	3	31	1.47
1635444--1635509	33	2.0	33	87	0	96	24	45	1	28	1.62
1637639--1637685	23	2.0	23	84	8	60	27	8	14	48	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637825--1637871	20	2.4	19	79	10	58	19	17	8	55	1.67
1637989--1638038	20	2.5	20	81	12	75	22	16	10	52	1.73
1654646--1654675	13	2.3	13	100	0	60	60	0	0	40	0.97
1665542--1665571	15	1.9	15	93	6	51	6	30	20	43	1.77
1673101--1673129	2	14.5	2	100	0	58	48	0	0	51	1.00
1675504--1675622	39	3.1	38	77	12	118	47	1	15	35	1.55
1679096--1679161	21	3.0	22	80	17	75	37	0	1	60	1.06
1680386--1680410	10	2.5	10	100	0	50	8	32	12	48	1.69
1684654--1684695	21	2.0	21	86	4	59	52	9	16	21	1.72
1687499--1687636	21	6.7	21	71	6	77	36	25	17	21	1.94
1687604--1687796	20	9.6	20	82	5	219	36	26	18	19	1.94
1688176--1688246	33	2.2	33	94	0	124	11	23	16	47	1.79
1688326--1688435	21	5.8	20	74	17	108	45	18	24	11	1.83
1688319--1688435	41	3.1	38	81	14	145	46	17	25	11	1.81
1688386--1688442	14	3.7	14	75	20	60	43	22	24	8	1.81
1688378--1688458	33	2.5	33	95	0	144	46	22	22	8	1.78
1688454--1688579	19	7.1	19	71	18	110	11	24	19	44	1.83
1688476--1688532	14	3.7	14	75	20	60	8	24	22	43	1.81
1688459--1688579	33	3.5	33	93	6	188	10	23	19	45	1.82
1690273--1690741	93	5.1	93	99	0	913	21	12	19	46	1.83
1690786--1690914	19	7.3	19	77	17	134	48	27	15	8	1.74
1690821--1690914	33	2.8	33	90	4	145	50	26	15	7	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1690872--1690898	14	1.9	14	100	0	54	48	29	14	7	1.71
1690786--1690914	52	2.5	52	76	12	147	48	27	15	8	1.74
1690910--1691082	19	9.6	19	75	12	150	11	18	23	46	1.81
1690932--1690988	14	3.7	14	77	20	60	10	19	22	47	1.80
1690915--1691007	33	2.8	33	90	0	150	11	19	20	48	1.80
1690910--1691066	33	4.4	38	81	5	127	10	19	22	47	1.80
1693007--1693042	14	2.6	14	95	0	63	33	0	22	44	1.53
1693149--1693246	19	5.4	19	82	13	134	45	18	21	14	1.84
1693149--1693265	53	2.2	53	96	1	218	44	18	23	13	1.85
1693261--1693424	33	4.8	33	72	16	154	14	21	17	46	1.83
1693255--1693477	53	4.2	52	94	1	367	14	21	17	45	1.85
1693312--1693491	86	2.1	84	86	12	242	13	22	18	46	1.83
1693312--1693491	33	5.2	34	76	16	183	13	22	18	46	1.83
1693255--1693477	19	12.7	19	75	19	225	14	21	17	45	1.85
1693292--1693510	53	4.2	53	88	5	227	13	21	19	46	1.84
1695771--1695795	12	2.1	12	100	0	50	0	28	0	72	0.86
1695970--1696016	24	2.0	24	87	8	69	38	21	14	25	1.92
1696709--1696939	20	11.6	20	90	0	291	21	17	25	35	1.95
1696709--1696977	40	6.7	40	90	0	288	20	17	24	37	1.94
1696709--1696977	60	4.5	60	83	3	283	20	17	24	37	1.94
1704786--1704838	15	3.5	15	89	2	79	9	66	16	7	1.43
1704786--1704840	16	3.6	15	85	11	76	10	63	18	7	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1708270--1708315	2	23.0	2	100	0	92	50	0	0	50	1.00
1708524--1708711	84	2.2	84	88	0	268	21	20	27	30	1.98
1708699--1708821	67	1.9	64	86	8	176	29	9	21	39	1.85
1708699--1708825	33	3.9	33	86	6	170	30	10	20	38	1.86
1708874--1708980	36	3.0	36	92	0	178	41	14	21	23	1.89
1709404--1710972	105	14.9	105	93	1	2469	23	18	24	33	1.97
1715562--1715590	2	14.5	2	100	0	58	48	0	0	51	1.00
1737450--1737504	20	2.8	20	97	0	101	34	12	20	32	1.90
1739270--1739338	29	2.4	29	88	9	97	49	5	0	44	1.26
1739282--1739340	27	2.2	26	82	11	75	47	5	0	47	1.24

Tables:   1   2   3   4   5   6   7   8