genome.fa.s9072.2.7.7.80.10.50.1000.8.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: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2600608

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

This is table  8  of  13  ( 1560 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)
1421507--1421877	184	2.0	184	91	2	593	45	8	3	42	1.52
1421732--1421768	19	1.9	19	94	0	65	51	10	2	35	1.51
1422164--1422239	34	2.3	34	88	2	109	35	14	17	32	1.90
1422177--1422252	34	2.2	34	83	4	91	38	17	18	26	1.92
1422602--1422660	28	2.0	29	84	12	77	57	5	3	33	1.37
1425499--1425524	11	2.4	11	100	0	52	19	0	0	80	0.71
1426077--1426146	29	2.3	29	82	4	86	32	17	4	45	1.67
1426269--1426342	29	2.5	30	82	4	87	48	9	10	31	1.70
1428133--1428203	12	5.4	13	74	22	51	42	0	0	57	0.98
1428141--1428201	18	3.4	18	71	15	54	44	0	0	55	0.99
1428133--1428190	3	19.7	3	79	10	66	39	0	0	60	0.97
1437474--1437504	9	3.6	9	91	8	55	22	22	0	54	1.44
1441386--1441434	19	2.8	17	84	9	64	36	8	6	48	1.58
1442611--1443025	224	1.9	224	91	0	677	38	13	19	28	1.90
1442591--1443025	113	3.9	113	90	1	658	37	14	20	28	1.91
1443365--1443426	21	3.0	21	79	15	74	38	0	0	61	0.96
1443365--1443413	3	16.7	3	83	12	66	34	0	0	65	0.93
1444787--1444835	2	24.5	2	95	0	89	51	0	0	48	1.00
1448154--1448212	19	3.2	19	73	17	54	76	3	5	15	1.10
1448150--1448197	20	2.4	19	80	16	53	77	4	4	14	1.08
1449756--1450042	84	3.4	83	82	5	292	23	20	24	31	1.98
1450205--1451593	106	13.2	106	93	1	2186	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)
1450205--1451593	210	6.6	211	92	1	2223	23	18	25	32	1.97
1455285--1455330	19	2.6	18	82	6	58	76	4	4	15	1.11
1457168--1457198	2	15.5	2	100	0	62	48	0	0	51	1.00
1469320--1469467	59	2.5	60	76	6	142	33	21	4	39	1.74
1469627--1469739	60	1.9	61	85	3	158	39	5	21	33	1.76
1479996--1480056	23	2.7	23	81	0	68	37	21	24	16	1.93
1480807--1480877	34	2.1	34	84	2	90	26	29	12	30	1.93
1481237--1481301	33	2.0	33	90	3	105	16	18	40	24	1.91
1481236--1481304	18	4.0	18	72	27	60	15	18	39	26	1.91
1484104--1484150	23	2.0	23	100	0	94	34	40	4	21	1.73
1484514--1484553	21	1.9	21	85	10	55	20	10	32	37	1.85
1486932--1486987	23	2.4	23	90	0	85	55	17	16	10	1.69
1488513--1488609	48	2.0	48	93	0	167	30	16	15	37	1.90
1488596--1488743	69	2.2	67	84	7	192	47	0	26	26	1.52
1488604--1488743	23	6.2	23	84	6	171	47	0	25	27	1.53
1499483--1499551	23	3.0	23	80	0	84	15	26	24	33	1.95
1499581--1499614	17	2.1	17	88	5	52	32	23	5	38	1.79
1499769--1499793	4	6.2	4	100	0	50	24	0	24	52	1.48
1499875--1499920	22	2.0	23	83	4	58	47	0	17	34	1.48
1501270--1501306	19	1.9	19	88	0	56	21	2	18	56	1.54
1501482--1501540	28	2.0	30	87	12	88	28	1	5	64	1.24
1506986--1507043	29	2.1	27	81	15	66	62	8	3	25	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512556--1512605	16	3.0	16	91	5	73	38	6	30	26	1.80
1515388--1515808	208	2.0	208	89	3	648	24	19	16	39	1.92
1522906--1522958	26	2.0	26	100	0	106	35	15	7	41	1.75
1525411--1525453	18	2.4	18	96	0	77	25	30	23	20	1.99
1530243--1530279	18	2.1	18	100	0	74	16	21	21	40	1.91
1535085--1535121	2	18.5	2	94	0	65	51	0	0	48	1.00
1537580--1537646	3	23.3	3	91	8	113	65	0	0	34	0.93
1537580--1537646	17	3.9	18	92	7	113	65	0	0	34	0.93
1537580--1537646	20	3.3	20	100	0	134	65	0	0	34	0.93
1538544--1538662	20	5.9	20	81	9	127	13	21	21	43	1.86
1538628--1538670	19	2.3	19	100	0	86	18	20	16	44	1.87
1538673--1538740	22	3.1	22	80	4	93	22	14	25	38	1.92
1538647--1538762	43	2.8	41	85	5	178	21	15	21	41	1.90
1539755--1539781	6	4.5	6	100	0	54	0	14	51	33	1.43
1540472--1540512	22	1.9	21	85	5	55	43	7	12	36	1.70
1546831--1546889	30	1.9	32	82	6	77	32	8	23	35	1.85
1548799--1548827	2	14.5	2	100	0	58	48	0	0	51	1.00
1551174--1551216	23	1.9	22	86	13	61	44	0	11	44	1.40
1551186--1551538	37	9.6	37	81	7	375	44	3	8	43	1.53
1551191--1551538	75	4.7	75	84	6	383	45	3	8	42	1.52
1551186--1551536	110	3.2	109	85	7	412	44	3	8	43	1.53
1551537--1551617	29	2.7	30	81	12	94	28	2	1	67	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553380--1553404	13	1.9	13	100	0	50	36	32	8	24	1.84
1563158--1563208	26	2.0	26	92	3	86	29	27	9	33	1.89
1567173--1567232	3	20.0	3	86	13	88	33	0	0	66	0.92
1567709--1567747	17	2.4	17	91	4	62	58	15	25	0	1.37
1568547--1568580	3	11.3	3	87	0	50	26	2	0	70	1.01
1568840--1568877	18	2.1	18	90	0	58	55	2	0	42	1.14
1569365--1569422	28	2.1	27	84	6	73	32	5	1	60	1.29
1570976--1571024	12	3.9	12	76	10	53	24	10	6	59	1.53
1575097--1575544	114	3.9	114	94	0	743	33	14	19	31	1.92
1578077--1578131	22	2.5	22	84	0	74	36	14	12	36	1.84
1578539--1578978	113	3.9	112	93	2	713	36	15	20	28	1.93
1579232--1579293	3	21.0	3	81	15	76	33	0	0	66	0.92
1580677--1580713	18	2.1	18	90	10	58	59	0	0	40	0.97
1580957--1580994	18	2.1	18	90	0	58	55	2	0	42	1.14
1582074--1582124	26	2.0	26	84	3	68	31	23	7	37	1.83
1587131--1587180	2	25.0	2	100	0	100	50	0	0	50	1.00
1593959--1594062	51	2.0	51	96	0	190	35	21	18	25	1.95
1594614--1594720	38	2.8	36	87	12	153	39	0	2	57	1.20
1596763--1596801	19	2.1	19	100	0	78	28	5	15	51	1.64
1596893--1596972	40	2.0	40	92	0	133	25	8	20	46	1.79
1596908--1596998	34	2.5	37	89	10	134	19	6	21	51	1.69
1596977--1597019	21	2.0	21	100	0	86	16	4	23	55	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1596943--1597059	61	2.0	58	90	9	186	19	5	23	51	1.69
1597168--1597216	21	2.4	21	86	3	64	44	4	2	48	1.33
1598750--1598844	50	1.9	50	85	8	131	46	3	15	34	1.62
1600042--1600393	66	5.3	65	67	12	216	40	17	25	17	1.91
1600038--1600408	132	2.8	132	84	1	483	39	17	26	16	1.90
1615090--1615174	2	43.5	2	95	4	156	48	0	0	51	1.00
1616655--1616768	58	1.9	59	85	1	158	34	20	12	33	1.90
1616752--1616980	54	4.2	54	89	0	305	33	20	17	28	1.95
1617384--1617435	20	2.6	20	100	0	104	25	26	17	30	1.97
1618417--1618451	13	2.6	14	90	4	54	34	20	31	14	1.92
1622167--1622246	3	26.7	3	77	14	67	36	3	1	58	1.24
1622165--1622246	22	3.8	21	82	9	94	36	3	1	58	1.24
1622164--1622238	8	10.0	7	75	17	55	37	4	1	57	1.26
1628572--1629011	221	2.0	220	97	2	839	39	12	16	32	1.85
1629338--1629534	51	3.8	51	82	7	222	36	18	20	24	1.95
1631089--1631170	42	2.0	42	87	4	121	23	15	21	39	1.92
1631380--1631428	20	2.5	20	86	0	62	28	26	14	30	1.95
1631499--1631553	20	2.8	20	82	0	74	32	20	16	30	1.94
1631374--1631805	119	3.7	119	88	2	644	34	16	16	32	1.92
1631618--1631672	20	2.8	20	85	0	74	32	23	18	25	1.97
1631806--1631860	20	2.8	20	80	0	65	29	21	20	29	1.98
1631731--1631894	75	2.3	69	88	6	229	31	17	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632019--1632098	3	26.7	3	79	14	76	36	2	1	60	1.18
1632016--1632098	22	3.6	22	82	12	98	37	2	1	59	1.19
1632019--1632098	19	4.5	17	77	21	83	36	2	1	60	1.18
1632134--1632167	17	2.0	17	94	0	59	26	41	14	17	1.88
1636419--1636488	35	2.0	35	88	5	106	31	17	27	24	1.97
1637317--1637479	21	7.6	21	79	2	164	20	17	26	35	1.95
1640915--1640984	35	2.0	35	88	5	106	31	17	27	24	1.97
1641815--1641979	21	7.7	21	82	4	195	20	19	24	35	1.96
1646302--1646353	16	3.2	16	76	13	61	69	1	0	28	0.99
1646312--1646354	17	2.5	18	81	11	54	69	2	0	27	1.00

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