genome.fa.s8061.2.7.7.80.10.50.1000.9.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  9  of  26  ( 3118 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)
1538022--1538137	57	2.2	51	87	9	160	35	3	6	55	1.42
1538047--1538170	34	4.0	33	74	22	133	37	4	4	53	1.44
1538060--1538143	29	2.9	29	76	15	102	38	2	4	54	1.34
1538154--1538199	24	2.0	23	91	4	74	30	2	6	60	1.34
1539237--1539302	19	3.5	19	76	13	66	66	1	1	30	1.10
1539251--1539301	14	3.6	14	76	7	50	64	1	0	33	1.05
1541000--1541076	20	4.0	20	88	6	97	0	31	1	67	0.99
1541000--1541061	27	2.3	28	84	13	78	0	29	1	69	0.98
1541018--1541069	27	1.9	27	84	7	70	0	32	0	67	0.91
1541327--1541378	18	2.8	18	85	2	68	19	19	46	15	1.85
1542575--1542635	13	4.8	13	76	11	72	26	0	1	72	0.94
1542577--1542639	30	2.1	30	82	11	76	23	0	1	74	0.90
1542587--1542631	22	2.0	22	86	0	63	24	0	2	73	0.95
1542579--1542623	17	2.7	17	82	3	56	26	0	2	71	0.98
1542892--1542951	13	4.8	13	78	15	72	71	1	0	26	0.95
1542887--1542931	21	2.1	21	91	0	72	75	0	0	24	0.80
1542887--1542947	16	4.0	16	77	12	56	72	1	0	26	0.94
1542887--1542939	21	2.5	21	87	0	70	73	1	0	24	0.93
1542887--1542951	21	3.3	20	73	20	66	72	1	0	26	0.94
1544253--1544292	18	2.0	21	86	13	59	30	5	2	62	1.29
1551138--1551169	2	16.0	2	100	0	64	50	0	0	50	1.00
1560564--1560608	21	2.2	21	84	4	56	17	17	4	60	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1584539--1584571	16	2.0	17	88	5	50	48	0	0	51	1.00
1586531--1586925	193	2.1	193	99	0	783	29	26	20	23	1.99
1594147--1594180	17	2.0	17	88	0	50	70	2	5	20	1.21
1596989--1597096	53	2.0	53	100	0	216	36	14	20	28	1.92
1597806--1598006	70	2.9	70	92	1	325	11	16	17	53	1.72
1600642--1600681	18	2.2	18	86	0	53	65	0	2	32	1.06
1600645--1600682	17	2.3	17	86	4	51	63	0	2	34	1.09
1601338--1601770	184	2.4	183	85	1	607	30	12	11	45	1.77
1601782--1602078	74	4.0	74	81	8	336	32	13	12	41	1.81
1601782--1602078	78	4.0	71	80	11	285	32	13	12	41	1.81
1607191--1607215	3	8.3	3	100	0	50	68	0	0	32	0.90
1607414--1607502	18	5.1	17	77	2	88	37	10	10	42	1.72
1607490--1607787	144	2.1	144	97	0	560	30	13	19	36	1.90
1609638--1609694	16	3.5	16	83	7	71	59	0	1	38	1.08
1609638--1609699	29	2.0	29	85	14	81	59	0	1	38	1.07
1609802--1609882	16	5.2	15	76	15	67	60	0	3	35	1.15
1609794--1609863	26	2.7	27	78	10	74	61	0	1	37	1.05
1609617--1609917	161	1.9	156	85	8	410	55	1	4	38	1.29
1624923--1625214	144	2.0	142	92	6	484	33	11	17	36	1.86
1625715--1626539	417	2.0	406	95	3	1492	32	17	17	32	1.94
1629448--1629496	20	2.5	20	96	0	89	26	30	18	24	1.98
1634653--1634764	29	3.9	29	97	0	206	19	43	27	8	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1634771--1634880	30	3.7	30	90	0	184	23	47	18	10	1.80
1635493--1635536	21	2.1	21	91	0	70	29	0	15	54	1.42
1635513--1635566	28	1.9	28	96	0	99	29	0	12	57	1.36
1638618--1639090	59	8.3	58	88	9	688	39	0	14	45	1.48
1638729--1638816	21	4.4	20	64	20	58	40	0	14	44	1.46
1638670--1638815	11	12.6	11	69	21	59	39	0	15	45	1.46
1638772--1638884	25	4.3	25	66	19	61	40	0	15	43	1.52
1638618--1639040	59	7.2	60	93	5	706	39	0	14	44	1.49
1639013--1639105	14	6.6	14	71	18	68	37	0	13	48	1.43
1638975--1639086	45	2.4	48	89	7	167	40	0	11	48	1.40
1639058--1639106	25	2.0	25	95	0	89	36	0	16	46	1.47
1639177--1639203	7	3.9	7	100	0	54	55	14	14	14	1.70
1639312--1639376	14	5.2	13	75	17	50	38	7	7	46	1.61
1639323--1639356	11	3.2	11	83	8	52	38	8	5	47	1.59
1639323--1639366	21	2.1	21	86	0	61	40	9	4	45	1.56
1639361--1639393	17	1.9	17	100	0	66	36	6	9	48	1.60
1641516--1641596	33	2.5	33	84	11	98	49	12	0	38	1.41
1641577--1641629	12	4.3	12	84	11	63	52	16	0	30	1.44
1641658--1641748	45	2.0	48	87	10	136	47	10	0	41	1.39
1641658--1641761	45	2.2	47	85	11	133	48	11	0	40	1.40
1641729--1641817	41	2.2	40	78	8	90	46	10	1	42	1.45
1641853--1641891	16	2.3	18	86	8	55	56	5	0	38	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642103--1642211	49	2.3	48	92	6	177	22	19	37	20	1.94
1642359--1642396	19	2.0	19	100	0	76	10	21	36	31	1.87
1642406--1642509	29	3.6	29	98	0	199	8	27	43	20	1.81
1644185--1644267	3	27.0	3	82	4	103	39	0	0	60	0.97
1644686--1644729	14	3.1	14	86	0	70	81	2	15	0	0.78
1646419--1646461	18	2.4	18	76	7	52	25	4	2	67	1.22
1646456--1646493	15	2.8	13	88	11	51	23	5	2	68	1.23
1658238--1658728	83	5.9	83	97	1	907	28	11	22	37	1.89
1659456--1660126	112	6.0	112	91	2	978	36	15	18	30	1.91
1660357--1660439	3	27.0	3	82	4	94	40	0	0	59	0.98
1660856--1660900	21	2.1	21	83	0	54	80	2	17	0	0.82
1660859--1660907	14	3.1	16	80	13	57	77	4	18	0	0.92
1666978--1667045	31	2.2	31	97	0	127	39	27	10	22	1.86
1667427--1667599	95	1.8	96	94	1	312	35	21	7	35	1.82
1669918--1669964	18	2.5	19	89	6	78	40	4	17	38	1.69
1672682--1672735	3	17.3	3	83	14	65	68	1	0	29	1.00
1672882--1673003	40	3.0	40	70	11	113	29	17	27	25	1.97
1672940--1673278	133	2.5	134	87	1	475	24	18	30	25	1.98
1673458--1673634	66	2.8	62	78	6	185	37	15	20	25	1.92
1673948--1673976	15	1.9	15	100	0	58	48	6	13	31	1.69
1673939--1673982	15	2.9	15	80	12	54	43	4	18	34	1.70
1674104--1674225	66	1.9	65	86	6	176	46	13	13	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1674129--1674344	118	1.8	119	85	5	303	40	12	15	31	1.85
1674319--1674455	27	5.2	27	70	20	94	42	9	13	35	1.76
1674482--1674590	28	3.8	27	72	19	87	49	11	11	27	1.73
1674813--1675054	103	2.3	103	88	4	360	40	10	17	30	1.83
1675494--1675558	4	16.2	4	76	17	64	23	0	26	50	1.49
1675495--1675560	28	2.4	28	89	0	96	22	0	25	51	1.48
1676564--1676662	42	2.4	42	76	10	103	0	16	12	71	1.14
1676577--1676655	32	2.6	30	76	13	81	0	15	10	74	1.06
1677272--1677365	46	2.1	45	85	2	125	37	9	26	26	1.87
1682488--1682538	3	16.3	3	82	15	59	68	1	0	29	1.00
1683478--1683509	2	16.0	2	100	0	64	50	0	0	50	1.00
1684160--1684235	35	2.2	35	97	0	143	15	22	28	32	1.95
1686654--1686680	13	2.1	13	100	0	54	48	7	7	37	1.59
1687041--1687071	16	1.9	16	100	0	62	19	35	25	19	1.95
1687269--1687325	15	3.7	15	77	9	69	21	33	28	17	1.96
1687269--1687337	15	4.3	16	75	10	52	21	31	27	18	1.97
1687269--1687337	32	2.2	32	91	0	111	21	31	27	18	1.97
1687363--1687417	15	3.4	16	85	7	76	25	30	30	12	1.93
1687992--1688024	15	2.2	15	94	0	57	42	3	6	48	1.43
1688281--1688537	77	3.4	76	84	2	313	36	15	9	38	1.80
1688595--1688640	2	23.5	2	95	4	85	50	0	0	50	1.00
1688725--1688874	76	2.0	76	81	2	176	38	16	10	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1688625--1689181	258	2.2	260	85	5	754	35	15	8	40	1.78
1698568--1698633	22	3.1	22	91	6	109	36	12	12	39	1.80
1700376--1700406	16	1.9	16	93	0	53	35	6	25	32	1.82
1711813--1711905	21	4.6	20	80	6	98	50	20	18	10	1.76
1711813--1711908	40	2.4	40	81	8	115	51	19	18	10	1.75
1711931--1712029	20	5.1	19	87	2	126	13	22	18	46	1.83
1713836--1713868	17	1.9	17	88	11	50	24	15	15	45	1.84
1713722--1714097	94	4.1	93	93	2	589	21	11	19	47	1.81
1714217--1714337	58	2.2	53	85	8	154	10	22	20	46	1.81
1714217--1714337	19	6.6	19	78	11	144	10	22	20	46	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26