genome.fa.s422.2.7.7.80.10.50.1000.8.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: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457469

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

This is table  8  of  12  ( 1325 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)
1537116--1537170	21	2.6	21	76	0	56	43	20	34	1	1.62
1537158--1537203	21	2.2	21	88	7	67	52	17	26	4	1.63
1537167--1537226	21	2.9	21	84	0	75	45	20	30	5	1.72
1537608--1537729	43	2.8	43	83	0	154	32	27	13	27	1.93
1537694--1537900	43	4.8	44	78	3	190	34	23	18	23	1.96
1537608--1537889	86	3.3	86	77	6	218	34	24	16	24	1.95
1538268--1538293	10	2.6	10	100	0	52	0	15	15	69	1.20
1538376--1538411	17	2.1	17	89	0	54	63	0	13	22	1.29
1538849--1538886	4	9.5	4	83	11	51	76	2	0	21	0.91
1538853--1538886	17	2.0	17	94	0	59	76	2	0	20	0.92
1541616--1541657	22	1.9	22	85	0	57	35	2	7	54	1.41
1541678--1541713	13	2.6	14	86	8	56	13	2	2	80	0.93
1541709--1541821	3	40.0	3	69	21	57	27	7	0	64	1.25
1541729--1541794	26	2.6	25	79	13	73	22	6	0	71	1.08
1541709--1541821	8	13.3	9	70	22	57	27	7	0	64	1.25
1542037--1542086	11	4.5	11	75	5	55	28	0	2	70	0.99
1542104--1542158	29	2.0	28	82	7	67	18	5	3	72	1.18
1544793--1545035	95	2.7	94	82	10	276	28	17	20	33	1.96
1546385--1546426	22	1.9	22	85	9	59	35	0	4	59	1.19
1546486--1546599	3	40.0	3	70	18	66	27	7	0	64	1.24
1546623--1546657	14	2.5	14	90	0	52	14	20	0	65	1.26
1546635--1546678	23	1.9	23	86	9	63	11	13	0	75	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1546676--1546718	18	2.3	19	84	4	52	23	27	0	48	1.51
1546803--1546857	18	3.1	18	78	5	67	21	1	3	72	1.09
1546880--1546922	18	2.4	18	84	7	52	13	9	2	74	1.16
1546955--1547017	21	2.9	21	80	17	58	20	1	4	73	1.11
1549186--1549247	28	2.2	28	97	0	115	45	6	11	37	1.66
1550086--1550686	197	3.1	197	99	0	1175	26	15	14	43	1.85
1551407--1551464	21	2.8	21	94	0	98	29	12	10	48	1.73
1552757--1552834	16	4.9	16	82	0	75	11	14	28	46	1.79
1552725--1552834	32	3.4	32	82	0	121	11	13	29	45	1.79
1552748--1552850	32	3.2	32	80	5	84	14	12	25	47	1.79
1552800--1552904	54	2.0	54	82	1	131	11	11	25	51	1.71
1553681--1553715	2	17.5	2	100	0	70	51	0	0	48	1.00
1553715--1553745	2	15.5	2	100	0	62	51	0	48	0	1.00
1554492--1554563	2	36.0	2	83	5	92	2	47	2	47	1.31
1557325--1557377	20	2.7	20	74	11	63	28	33	15	22	1.94
1557398--1557604	20	10.4	20	83	5	258	38	22	17	21	1.93
1557365--1557590	40	5.7	41	83	10	258	38	23	17	20	1.93
1557418--1557596	99	1.8	99	88	0	277	38	22	17	21	1.93
1557365--1557604	119	2.0	120	91	0	392	38	22	17	20	1.93
1560267--1560358	42	2.2	43	86	5	134	22	35	17	23	1.95
1560267--1560355	21	4.2	21	76	11	92	22	37	17	22	1.94
1561737--1561876	66	2.2	60	86	9	183	31	0	17	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1561935--1561972	20	1.9	20	94	0	67	42	23	18	15	1.89
1562245--1562331	39	2.2	39	95	0	156	17	13	20	48	1.81
1562643--1562677	12	2.9	12	82	0	52	51	11	2	34	1.53
1563097--1563158	20	3.1	20	85	0	88	41	20	20	16	1.90
1564037--1564074	19	2.0	20	94	5	69	28	15	28	26	1.96
1564044--1564200	63	2.5	62	85	4	190	32	19	22	25	1.97
1565512--1565547	18	2.0	18	100	0	72	11	22	33	33	1.89
1565483--1565670	62	3.1	62	63	26	146	25	14	24	35	1.94
1565633--1565668	18	2.0	18	88	0	54	13	19	30	36	1.91
1565409--1565760	121	2.9	121	97	0	650	25	14	24	35	1.93
1565779--1565847	23	3.0	23	86	0	93	18	23	26	31	1.97
1569626--1569663	19	2.0	20	89	5	60	31	15	26	26	1.96
1569631--1569788	62	2.5	62	86	5	203	32	19	20	26	1.97
1570979--1571304	116	2.9	114	85	10	452	26	15	22	36	1.93
1571333--1571393	23	2.7	23	82	5	70	18	24	27	29	1.98
1574381--1574434	24	2.2	24	93	0	90	40	20	18	20	1.91
1574381--1574448	24	2.8	24	84	0	64	38	20	17	23	1.93
1575147--1575184	16	2.5	15	84	12	51	65	0	5	28	1.14
1575341--1575431	19	4.7	19	86	5	110	26	12	23	38	1.89
1575360--1575505	40	3.7	39	82	5	159	21	15	24	38	1.92
1575379--1575493	20	5.8	20	84	5	144	20	16	24	38	1.93
1575379--1575525	60	2.5	60	79	10	151	21	16	23	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575379--1575570	80	2.4	79	80	13	207	21	16	23	38	1.93
1575499--1575561	20	3.2	20	93	0	108	22	19	22	36	1.95
1575941--1576038	46	2.1	46	81	10	112	66	3	3	27	1.21
1575920--1576015	27	3.4	28	72	19	85	63	2	2	32	1.18
1576361--1576749	155	2.5	157	83	4	480	28	18	7	45	1.76
1580521--1580560	2	21.5	2	80	14	50	52	0	0	47	1.00
1581058--1581124	31	2.2	31	88	0	98	19	13	14	52	1.75
1581257--1581325	31	2.2	31	78	0	75	21	10	11	56	1.64
1583515--1583579	23	2.8	23	80	0	85	26	26	27	20	1.99
1588800--1588844	23	2.0	23	86	0	63	20	26	31	22	1.98
1590436--1590478	21	2.0	21	81	0	50	13	25	30	30	1.94
1591576--1591607	15	2.1	16	94	5	57	37	0	0	62	0.95
1595362--1595432	26	2.7	26	97	0	133	45	21	12	21	1.84
1597408--1597454	24	2.0	24	86	0	67	48	8	2	40	1.45
1597949--1597973	2	12.5	2	100	0	50	48	0	0	52	1.00
1601465--1601491	2	13.5	2	100	0	54	48	0	0	51	1.00
1601670--1601703	2	17.0	2	93	0	59	0	0	47	52	1.00
1602192--1602219	2	14.0	2	100	0	56	50	0	0	50	1.00
1604354--1604470	20	5.8	20	74	8	76	44	14	11	29	1.81
1604451--1604814	197	1.8	197	88	0	557	40	12	15	31	1.85
1605140--1605180	19	2.2	19	86	8	57	70	0	0	29	0.87
1607301--1608432	106	10.7	106	93	0	1834	23	18	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611212--1611249	19	2.1	19	90	5	60	71	0	21	7	1.11
1614014--1614053	20	2.0	20	95	0	71	37	17	15	30	1.90
1614122--1614185	21	3.2	21	72	20	73	34	7	12	45	1.71
1614114--1614189	39	1.9	39	94	0	134	35	7	11	44	1.70
1614391--1614440	20	2.5	20	75	15	57	32	14	14	40	1.85
1620342--1620390	3	15.7	3	79	8	53	59	0	0	40	0.98
1620320--1620399	28	2.7	28	83	11	81	53	0	0	46	1.00
1620353--1620398	22	2.1	22	88	8	67	52	0	0	47	1.00
1620343--1620392	16	3.1	16	81	16	59	58	0	0	42	0.98
1620320--1620395	19	3.9	19	77	19	70	55	0	0	44	0.99
1620774--1621047	37	7.5	36	73	2	242	39	13	16	30	1.88
1620769--1621045	73	3.8	73	95	0	491	39	14	16	29	1.88
1621089--1621414	166	2.0	166	92	2	548	38	12	13	36	1.82
1621929--1621983	22	2.5	22	93	0	101	40	14	10	34	1.81
1628393--1628421	14	2.1	14	100	0	58	48	20	0	31	1.50
1634093--1634160	2	37.0	2	80	16	85	54	0	0	45	0.99
1634091--1634174	16	4.9	17	80	13	77	54	0	0	45	0.99
1634139--1634184	22	2.1	22	88	8	67	52	0	0	47	1.00
1634916--1635375	131	3.5	131	92	2	737	41	14	11	32	1.82
1636391--1636465	38	2.0	37	82	10	91	46	2	1	49	1.24
1637185--1637271	37	2.3	38	77	18	101	45	0	1	52	1.08
1637246--1637294	18	2.8	17	78	6	53	55	2	0	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640400--1640443	21	2.1	21	91	0	70	20	29	18	31	1.96
1645525--1645596	32	2.3	31	95	4	128	25	19	20	34	1.96
1645525--1645613	32	2.9	31	88	6	92	28	19	19	33	1.96
1646585--1646622	19	2.0	20	94	5	69	36	13	10	39	1.79
1647168--1647202	16	2.1	17	89	5	54	37	11	20	31	1.88
1650773--1650845	3	24.0	3	88	2	110	65	0	1	32	1.01
1652578--1652610	11	3.0	11	95	0	57	36	6	45	12	1.66
1654362--1654391	2	15.0	2	92	0	51	46	0	3	50	1.18
1656062--1656167	18	5.9	18	87	0	131	21	19	31	27	1.98
1659331--1659428	18	5.4	18	90	0	142	24	22	24	28	1.99

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