genome.fa.s8029.2.7.7.80.10.50.1000.8.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  8  of  18  ( 2124 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)
1469310--1469374	19	3.2	20	79	14	80	47	1	0	50	1.10
1469477--1469527	23	2.2	23	82	0	57	45	1	1	50	1.24
1469515--1469567	19	2.7	18	76	21	52	43	1	1	52	1.23
1469545--1469612	30	2.3	30	78	16	79	51	1	0	47	1.09
1469597--1469642	18	2.5	19	82	10	60	43	0	4	52	1.21
1469632--1469678	22	2.1	23	88	4	69	53	0	0	46	1.00
1469615--1469684	32	2.2	34	87	10	103	51	0	1	47	1.09
1469639--1469695	21	2.6	22	81	10	64	52	0	0	47	1.00
1469908--1469998	41	2.2	41	92	2	146	47	18	15	18	1.83
1471408--1471452	2	24.0	2	78	13	51	44	2	2	51	1.26
1471407--1471460	26	2.2	25	87	12	76	40	3	3	51	1.37
1471429--1471478	12	3.6	14	78	21	52	36	4	2	58	1.29
1471506--1471564	14	3.9	14	73	18	55	20	6	3	69	1.26
1471724--1471755	13	2.5	13	95	5	57	9	12	0	78	0.97
1475030--1475081	26	1.9	28	88	7	81	15	5	7	71	1.29
1482198--1482246	9	5.4	9	81	13	57	87	0	12	0	0.54
1482187--1482246	20	3.1	19	81	11	68	85	0	15	0	0.61
1482184--1482246	22	3.1	19	80	15	72	84	0	15	0	0.63
1482187--1482246	12	4.8	12	80	15	59	85	0	15	0	0.61
1482187--1482244	27	2.1	27	83	3	71	84	0	15	0	0.62
1482187--1482234	6	7.5	6	77	13	51	83	0	16	0	0.65
1485695--1485726	12	2.6	13	90	9	50	28	6	0	65	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1487546--1487572	2	13.5	2	100	0	54	48	0	0	51	1.00
1499627--1499666	21	1.9	21	100	0	80	55	0	15	30	1.41
1500798--1500865	23	3.0	23	82	0	82	16	29	26	27	1.97
1505601--1505627	2	13.5	2	100	0	54	48	0	0	51	1.00
1506225--1506271	2	24.0	2	82	4	51	40	0	4	55	1.19
1506304--1506662	38	10.1	37	75	17	209	45	3	6	44	1.46
1506558--1506625	33	2.2	29	82	15	82	45	5	4	44	1.48
1506401--1506700	37	8.4	37	76	16	242	46	3	5	45	1.42
1506725--1506782	5	11.8	5	79	17	68	18	3	0	77	0.91
1506717--1506783	15	4.6	14	78	14	73	19	2	0	77	0.89
1507827--1507861	16	2.2	16	89	0	52	31	11	0	57	1.34
1507973--1508002	13	2.3	13	94	0	51	10	3	0	86	0.67
1513391--1513441	20	2.4	22	81	18	63	66	1	27	3	1.20
1523938--1524111	87	2.0	87	100	0	348	25	41	2	31	1.68
1524086--1524125	10	4.0	10	86	0	62	27	40	0	32	1.57
1524089--1524128	20	2.0	20	100	0	80	25	40	0	35	1.56
1524175--1524212	13	2.9	13	88	7	51	34	2	0	63	1.09
1531008--1531258	30	8.4	30	98	0	475	33	23	19	23	1.97
1531646--1531674	2	15.0	2	92	7	51	51	0	0	48	1.00
1535588--1535868	30	9.4	30	97	0	526	33	23	19	24	1.97
1536258--1536306	2	25.0	2	95	4	91	51	0	0	48	1.00
1538409--1538435	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1540795--1540835	21	2.0	21	86	13	59	39	7	0	53	1.29
1543134--1543166	16	2.0	17	88	5	50	48	6	0	45	1.27
1548440--1548536	47	2.0	48	96	4	178	32	5	36	25	1.78
1552800--1552851	26	2.0	26	85	7	70	73	5	9	11	1.25
1553279--1553303	2	12.5	2	100	0	50	52	0	0	48	1.00
1553340--1553371	2	16.0	2	100	0	64	50	0	0	50	1.00
1555616--1555646	12	2.6	12	94	0	53	32	6	19	41	1.77
1567036--1567069	17	2.1	17	88	5	52	76	2	11	8	1.12
1572959--1573100	33	4.4	33	79	9	159	42	33	9	14	1.79
1572960--1573058	28	3.4	28	81	15	119	41	35	10	13	1.78
1572960--1573081	61	2.0	62	90	1	192	43	32	9	14	1.77
1583376--1583416	21	2.0	21	95	0	73	17	17	29	36	1.92
1583669--1583712	18	2.4	18	88	0	61	59	4	11	25	1.51
1588082--1588185	13	8.7	12	72	12	70	58	0	6	34	1.24
1588081--1588185	3	36.0	3	75	12	85	58	0	6	35	1.25
1588107--1588181	16	4.5	17	79	15	86	57	0	4	38	1.18
1588118--1588184	11	6.3	10	83	10	80	58	0	2	38	1.14
1588095--1588180	34	2.5	35	83	10	99	56	0	5	37	1.23
1588081--1588181	8	12.0	8	72	18	73	57	0	6	35	1.26
1591181--1591221	20	2.0	20	86	9	57	63	14	0	21	1.30
1591653--1591696	23	1.9	23	90	0	70	25	25	27	22	2.00
1597460--1597564	46	2.3	46	80	6	124	34	18	18	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1597889--1597915	13	2.1	13	100	0	54	55	0	0	44	0.99
1604054--1604093	21	2.0	20	86	13	57	62	5	12	20	1.48
1611327--1611429	34	3.0	33	94	5	179	61	17	5	15	1.53
1613343--1613402	21	3.2	21	61	34	55	60	18	6	15	1.56
1613334--1613402	34	2.0	34	100	0	138	59	17	5	17	1.56
1618181--1618245	14	5.0	14	76	16	59	61	21	9	7	1.51
1618175--1618232	24	2.4	24	97	0	107	60	24	10	5	1.49
1622411--1622500	45	2.0	45	100	0	180	20	24	6	48	1.73
1626482--1626539	23	2.5	24	78	18	68	31	25	25	17	1.97
1632033--1632066	17	1.9	18	94	5	61	47	2	0	50	1.16
1632158--1632250	17	5.6	17	65	14	59	47	3	1	48	1.25
1632292--1632382	44	2.1	43	89	4	139	37	3	12	47	1.57
1632815--1632928	42	2.7	41	87	5	131	46	13	2	37	1.57
1632966--1633057	17	5.6	17	68	17	59	47	0	3	48	1.17
1632999--1633036	18	2.1	18	90	9	60	44	0	0	55	0.99
1633137--1633170	17	1.9	18	94	5	61	50	0	2	47	1.16
1634879--1635565	112	6.1	112	89	3	956	45	14	14	25	1.82
1634879--1635565	223	3.1	221	88	2	987	45	14	14	25	1.82
1634879--1635565	335	2.0	336	89	1	1047	45	14	14	25	1.82
1635624--1635859	112	2.1	112	89	0	364	45	14	13	26	1.82
1635324--1636024	294	2.4	294	90	0	1089	44	13	15	26	1.84
1635734--1636364	182	3.5	182	91	0	974	43	12	15	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636986--1637033	23	2.1	23	92	0	78	37	18	8	35	1.81
1650127--1650156	2	15.5	2	93	6	53	50	0	0	50	1.00
1653023--1653202	60	3.0	61	79	8	204	35	20	6	38	1.77
1655019--1655061	22	2.0	20	86	8	59	44	9	0	46	1.35
1655026--1655066	17	2.6	16	84	7	57	46	12	0	41	1.41
1656271--1656305	3	11.7	3	93	0	61	28	0	0	71	0.86
1656270--1656363	6	15.5	6	74	14	59	19	3	2	75	1.04
1656253--1656383	9	13.8	9	71	15	50	18	4	3	74	1.13
1656340--1656373	17	2.0	17	88	0	50	14	0	2	82	0.79
1659605--1659677	35	2.1	35	92	0	119	19	15	2	63	1.43
1660185--1660386	99	2.0	99	92	0	332	32	17	18	30	1.95
1662290--1662605	85	3.7	85	82	5	370	37	19	17	25	1.94
1662290--1662619	86	3.9	85	81	6	348	37	19	17	25	1.93
1663271--1663316	22	2.2	20	88	7	65	45	8	0	45	1.34
1663281--1663322	17	2.6	16	85	7	59	47	11	0	40	1.40
1663270--1663323	22	2.4	23	79	17	60	44	11	0	44	1.39
1665264--1665308	2	22.5	2	100	0	90	48	0	0	51	1.00
1665446--1665489	19	2.4	19	85	11	56	45	0	2	52	1.13
1665526--1665567	21	2.0	21	81	13	50	45	4	2	47	1.36
1670965--1671079	42	2.7	42	87	0	167	34	17	22	25	1.95
1671496--1671606	57	2.0	56	89	1	168	36	7	24	31	1.83
1672546--1672627	42	2.0	42	87	0	119	23	21	18	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673994--1674022	2	15.0	2	92	7	51	48	0	0	51	1.00
1674991--1675067	12	6.5	11	75	18	57	20	3	0	75	0.96
1674994--1675054	9	6.9	9	85	12	58	22	1	0	75	0.89
1675012--1675042	3	10.7	3	93	6	55	29	0	0	70	0.87
1674995--1675047	23	2.3	23	81	15	65	24	0	0	75	0.80
1675079--1675125	23	2.0	23	84	8	60	10	4	2	82	0.88
1675090--1675152	16	4.1	15	78	9	65	9	4	4	80	0.99
1674991--1675181	19	10.5	17	67	21	54	16	4	3	75	1.12
1675147--1675217	20	3.3	22	73	15	60	22	4	2	70	1.18
1679613--1679652	21	2.0	20	85	14	55	27	0	7	65	1.20

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18