genome.fa.s7905.2.7.7.80.10.50.1000.8.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: VEPZ01007905.1 Hibiscus syriacus cultivar Beakdansim tig00110299_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2946335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  8  of  14  ( 1644 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)
1466649--1466704	6	9.3	6	81	18	55	41	0	1	57	1.09
1466649--1466701	21	2.5	22	85	14	76	41	0	1	56	1.10
1479187--1479223	17	2.1	19	85	10	51	51	13	5	29	1.63
1486022--1486050	2	14.5	2	100	0	58	48	0	0	51	1.00
1492441--1492503	20	3.2	20	69	22	62	41	6	7	44	1.59
1503725--1503767	16	2.6	16	88	3	59	51	2	0	46	1.13
1505892--1506098	103	2.0	103	93	0	351	31	13	29	25	1.94
1512052--1512149	47	2.1	46	84	3	133	35	4	13	46	1.62
1514291--1514323	13	2.4	14	90	10	50	45	0	9	45	1.35
1519314--1519617	135	2.4	122	80	14	387	30	17	22	28	1.97
1519471--1519495	13	1.9	13	100	0	50	32	24	20	24	1.98
1519483--1519567	42	2.0	42	88	0	125	24	18	27	29	1.98
1519349--1519640	135	2.2	135	92	1	478	29	18	23	29	1.98
1519525--1519887	93	4.0	93	71	12	322	30	18	22	28	1.97
1519715--1519955	42	5.8	42	73	11	201	29	18	22	29	1.97
1519762--1519823	20	2.9	22	69	9	65	25	19	27	27	1.99
1519742--1519813	20	3.5	20	70	7	63	23	23	25	27	2.00
1520112--1520645	264	2.0	266	91	1	858	37	12	22	27	1.90
1522390--1522436	2	24.0	2	95	4	87	48	0	0	51	1.00
1522451--1522491	17	2.4	17	100	0	82	46	0	17	36	1.48
1531827--1531900	28	2.6	29	81	12	82	36	8	0	55	1.30
1532005--1532029	5	5.0	5	100	0	50	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)
1531985--1532055	33	2.1	34	81	2	81	40	4	1	53	1.29
1532057--1532104	20	2.3	22	82	7	64	64	0	4	31	1.12
1532065--1532169	35	3.3	30	73	20	79	67	0	4	27	1.10
1532065--1532143	35	2.2	36	84	8	99	64	0	6	29	1.18
1532134--1532172	19	2.0	19	90	5	60	74	0	0	25	0.82
1533263--1533562	147	2.0	147	97	0	564	31	26	7	34	1.84
1533646--1533727	35	2.3	35	91	0	128	28	21	17	32	1.96
1533646--1533880	35	6.3	35	71	20	120	26	22	17	34	1.95
1533681--1533885	76	2.7	77	84	4	288	25	21	18	34	1.96
1542120--1542172	17	3.1	17	88	0	79	41	5	15	37	1.70
1542123--1542190	17	3.9	18	84	5	61	41	8	11	38	1.73
1544693--1544722	14	2.1	14	100	0	60	43	26	0	30	1.55
1545050--1545105	28	2.0	28	86	6	78	12	8	1	76	1.08
1548857--1549100	28	8.4	29	73	12	171	38	4	0	55	1.25
1548891--1549099	87	2.4	86	81	12	227	39	5	0	54	1.27
1548953--1549043	31	2.8	31	83	9	85	38	5	0	56	1.23
1550842--1550920	29	2.7	28	88	7	113	54	7	6	31	1.54
1554057--1554132	31	2.4	31	77	2	80	26	30	27	15	1.96
1554010--1554132	63	2.0	63	80	6	142	25	28	28	17	1.98
1556958--1556996	7	5.3	7	88	11	60	25	25	35	12	1.92
1556957--1556996	15	2.7	15	100	0	80	25	25	37	12	1.91
1556999--1557047	13	3.8	13	91	0	80	16	18	46	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556986--1557021	18	2.0	18	94	0	63	11	22	47	19	1.80
1556957--1556999	8	5.6	8	89	10	72	23	25	37	13	1.92
1559136--1559211	31	2.4	31	80	2	89	26	31	27	14	1.95
1559089--1559211	63	2.0	63	82	6	151	25	29	28	17	1.97
1562031--1562068	7	5.3	7	93	6	67	26	26	34	13	1.93
1562058--1562093	18	2.0	18	94	0	63	11	22	47	19	1.80
1562071--1562118	13	3.8	13	88	5	71	16	18	45	18	1.85
1564886--1564946	26	2.3	26	94	0	113	16	19	24	39	1.92
1570472--1570506	2	18.0	2	94	5	63	48	0	0	51	1.00
1576328--1576440	34	3.2	34	68	17	88	61	2	12	23	1.44
1588293--1588347	27	2.0	26	83	13	67	16	16	7	60	1.57
1590548--1590595	21	2.4	19	77	16	51	39	27	12	20	1.89
1592346--1592384	15	2.8	13	82	14	51	35	12	0	51	1.40
1604585--1605077	81	6.1	81	87	0	666	35	10	22	31	1.88
1609773--1610267	81	6.1	80	85	2	625	35	10	22	31	1.88
1609773--1610267	243	2.0	243	88	0	720	35	10	22	31	1.88
1615008--1615694	117	5.7	122	83	7	831	39	16	18	26	1.91
1615008--1615682	240	2.8	239	86	6	927	39	16	18	25	1.91
1615034--1615710	354	1.9	352	84	6	902	39	16	18	25	1.91
1615805--1615879	3	25.3	3	84	8	91	34	0	0	65	0.93
1616376--1616416	20	2.0	20	100	0	82	46	34	4	14	1.66
1617331--1617415	2	44.0	2	93	6	149	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1619381--1619414	7	4.7	7	85	7	50	0	11	0	88	0.52
1619382--1619406	13	1.9	13	100	0	50	0	12	0	88	0.53
1624210--1624247	13	2.7	14	84	15	60	28	0	7	63	1.23
1627655--1627841	93	2.0	94	85	3	252	32	16	25	25	1.96
1628105--1628219	54	2.1	54	93	0	194	28	20	20	31	1.97
1628405--1628433	14	2.0	15	93	6	51	68	0	3	27	1.05
1628470--1628578	31	3.6	31	90	8	165	53	12	0	33	1.39
1628651--1628720	25	2.8	25	80	12	81	60	5	1	32	1.29
1628496--1628934	151	2.8	156	82	15	574	53	12	0	33	1.41
1628828--1628878	14	3.6	14	70	15	50	58	5	0	35	1.22
1628804--1628882	29	2.6	30	92	6	124	55	10	0	34	1.33
1628838--1628968	49	2.7	48	85	10	178	54	8	0	36	1.31
1628933--1629059	14	9.6	14	80	15	139	51	0	0	48	1.00
1628933--1629059	25	4.8	28	82	15	148	51	0	0	48	1.00
1628933--1629062	27	5.0	27	81	16	134	52	0	0	47	1.00
1629017--1629086	27	2.6	27	79	2	79	54	2	0	42	1.15
1629301--1629715	52	7.9	53	83	7	508	35	20	18	26	1.95
1629324--1629731	207	2.0	206	86	5	572	35	19	18	26	1.95
1629392--1629794	207	1.9	205	85	6	546	35	19	18	26	1.95
1629960--1630184	80	2.8	80	88	1	319	36	11	20	31	1.88
1630201--1630324	40	2.9	42	84	7	162	45	8	21	24	1.80
1632372--1632424	21	2.5	21	73	11	54	37	22	15	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1645878--1645928	27	1.9	27	92	4	86	35	25	7	31	1.85
1652140--1652186	24	2.0	24	100	0	94	38	17	10	34	1.84
1653684--1653722	5	7.6	5	91	5	60	20	0	0	79	0.73
1655004--1655050	24	2.0	24	95	0	85	38	19	10	31	1.86
1656557--1656596	5	7.8	5	91	5	62	22	0	0	77	0.77
1661844--1662730	75	11.8	75	86	2	1181	31	18	11	38	1.86
1664156--1664194	18	2.2	18	86	9	53	10	7	17	64	1.48
1664720--1664751	16	2.0	16	93	0	55	21	0	0	78	0.76
1669146--1669175	3	9.7	3	92	7	51	0	30	0	70	0.88
1670741--1670781	15	2.8	15	82	10	50	58	7	0	34	1.26
1672630--1672694	31	2.1	31	82	0	76	26	18	21	33	1.96
1672680--1672744	30	2.2	30	91	0	103	26	21	21	30	1.98
1672691--1672752	30	2.1	30	100	0	124	24	19	24	32	1.98
1676748--1676778	3	10.0	3	93	6	53	0	32	0	67	0.91
1678162--1678234	30	2.4	30	90	0	110	24	20	24	30	1.99
1684400--1684460	29	2.1	30	84	3	79	34	18	6	40	1.76
1685083--1685152	24	3.0	24	95	2	124	40	4	15	40	1.67
1686022--1686060	18	2.2	18	100	0	78	58	10	7	23	1.56
1686333--1686378	11	3.9	12	80	11	51	50	0	0	50	1.00
1686616--1686662	23	2.0	23	84	8	60	59	2	8	29	1.39
1688407--1688431	12	2.1	12	100	0	50	60	16	16	8	1.58
1691773--1691816	3	14.7	3	100	0	88	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691823--1691867	3	15.0	3	86	9	65	62	0	0	37	0.96
1692220--1692664	113	4.0	112	81	4	497	29	18	15	36	1.92
1693472--1693763	93	3.1	93	94	1	487	34	20	15	29	1.93
1694690--1694734	7	6.4	7	82	10	56	0	17	0	82	0.68
1694690--1694749	14	4.4	14	80	14	56	0	18	0	81	0.69
1694694--1694743	14	3.4	15	78	13	59	0	18	0	82	0.68
1694696--1694746	24	2.1	24	85	7	68	0	15	0	84	0.63
1694696--1694749	12	4.6	11	80	17	56	0	16	0	83	0.65
1707528--1707587	3	19.0	3	86	6	75	60	0	0	40	0.97
1710524--1710584	31	2.0	31	93	0	104	24	19	21	34	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14