genome.fa.s8027.2.7.7.80.10.50.1000.8.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  8  of  38  ( 4505 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)
1431904--1431943	20	2.0	21	85	5	55	25	0	5	70	1.08
1433603--1433636	13	2.6	13	90	0	59	23	41	11	23	1.87
1435017--1435071	19	2.8	20	91	2	85	54	3	12	29	1.55
1436252--1436303	21	2.5	21	85	14	65	38	3	7	50	1.50
1438115--1438174	13	4.6	13	85	0	84	26	23	20	30	1.98
1438115--1438181	26	2.6	26	82	0	89	28	20	19	31	1.97
1442181--1442211	8	3.9	8	95	0	53	64	0	29	6	1.18
1444340--1444392	2	26.5	2	100	0	106	49	0	0	50	1.00
1447539--1447590	21	2.5	21	85	14	65	38	3	7	50	1.50
1455320--1455388	20	3.5	20	86	7	95	40	26	10	23	1.86
1455806--1455834	9	3.3	9	95	4	51	41	13	10	34	1.79
1459861--1459912	19	2.8	18	74	8	50	25	5	1	67	1.23
1459914--1459938	13	1.9	13	100	0	50	36	0	16	48	1.46
1460591--1460652	31	2.0	31	100	0	124	32	9	12	45	1.75
1462456--1462489	17	2.1	16	88	5	50	76	0	8	14	1.01
1471965--1471998	17	2.1	16	88	5	50	76	0	8	14	1.01
1473898--1473923	12	2.2	12	100	0	52	7	23	0	69	1.14
1476391--1476438	19	2.6	18	78	15	53	68	0	0	31	0.90
1476390--1476436	20	2.4	20	77	22	55	68	0	0	31	0.90
1476901--1476955	25	2.2	25	77	3	58	45	10	3	40	1.57
1479125--1479259	67	2.0	67	100	0	270	34	34	16	15	1.90
1479921--1479964	18	2.5	18	81	3	54	20	11	15	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488074--1488118	18	2.5	18	100	0	90	15	11	20	53	1.72
1494258--1494362	31	3.3	31	69	18	97	20	18	24	37	1.94
1496373--1496430	30	1.9	30	85	0	80	43	25	22	8	1.82
1516889--1516913	2	12.5	2	100	0	50	52	0	0	48	1.00
1521381--1521434	2	26.5	2	89	10	83	48	1	1	48	1.23
1529072--1529240	31	5.5	31	86	1	232	28	17	18	34	1.94
1529072--1529221	61	2.4	62	89	2	221	27	18	17	36	1.93
1529527--1529573	18	2.6	19	83	12	55	42	6	21	29	1.77
1531102--1531139	15	2.6	15	88	12	53	76	0	15	7	1.01
1532362--1532436	30	2.5	30	87	8	100	42	9	17	30	1.80
1533381--1533448	31	2.3	30	84	5	84	30	7	23	38	1.82
1534731--1534788	21	2.7	22	76	7	66	24	20	25	29	1.99
1534795--1534950	31	5.0	31	86	6	199	26	17	21	34	1.95
1537716--1537750	17	2.1	17	100	0	70	31	22	11	34	1.90
1541740--1541857	55	2.1	55	95	0	209	30	13	11	44	1.80
1545912--1546089	90	2.0	90	92	0	293	35	11	7	44	1.69
1552649--1552691	22	2.0	22	95	0	77	13	25	25	34	1.93
1553341--1554885	772	2.0	773	99	0	3058	36	16	16	30	1.91
1555178--1555305	35	3.6	35	78	6	150	30	20	15	33	1.94
1555166--1555305	71	2.0	71	88	0	208	30	20	16	33	1.94
1555414--1555550	61	2.3	59	80	7	143	22	24	27	25	2.00
1558689--1558816	35	3.6	35	76	6	141	32	18	15	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558866--1559007	59	2.4	59	80	10	148	23	23	28	24	2.00
1561299--1561349	27	1.9	26	84	4	66	45	21	11	21	1.84
1562154--1562282	35	3.7	35	77	6	143	31	20	14	34	1.93
1562152--1562284	71	1.9	71	90	3	214	30	20	15	33	1.94
1564559--1564600	22	1.9	22	90	0	66	14	21	26	38	1.91
1566294--1566422	35	3.7	35	77	6	143	31	20	14	34	1.93
1566292--1566424	71	1.9	71	90	3	214	30	20	15	33	1.94
1566530--1566666	59	2.3	59	80	7	143	21	25	29	24	1.99
1568742--1568783	22	1.9	22	90	0	66	14	21	26	38	1.91
1570465--1570592	35	3.6	35	77	6	141	31	20	14	33	1.93
1570453--1570592	71	2.0	71	86	0	199	30	20	15	33	1.94
1570642--1570783	59	2.4	58	80	11	155	21	23	28	25	1.99
1570642--1570783	60	2.4	60	81	10	159	21	23	28	25	1.99
1572867--1572921	19	2.8	19	77	2	56	20	30	20	29	1.97
1572914--1572963	22	2.3	22	92	0	82	14	26	26	34	1.94
1574667--1574794	35	3.6	35	73	10	125	31	21	14	32	1.93
1574665--1574799	71	1.9	71	93	3	236	30	22	15	31	1.95
1574804--1574849	19	2.3	20	85	3	58	19	34	21	23	1.96
1574849--1574891	22	2.0	22	100	0	86	18	23	25	32	1.97
1577747--1577808	31	2.2	28	83	13	74	29	29	24	17	1.97
1578229--1578272	20	2.2	20	84	8	54	36	18	15	29	1.92
1579528--1579599	31	2.3	31	100	0	144	45	2	13	37	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579638--1579692	2	28.0	2	96	3	103	50	0	0	49	1.00
1579783--1579820	16	2.4	16	100	0	76	28	21	0	50	1.49
1582637--1582666	8	3.8	8	95	0	51	26	0	20	53	1.46
1585024--1585084	28	2.1	30	87	6	90	39	4	19	36	1.74
1586511--1586607	24	4.0	24	95	0	176	34	10	12	43	1.76
1589851--1589893	17	2.5	17	96	0	77	30	25	6	37	1.82
1594044--1594229	36	5.1	36	80	7	182	30	14	6	47	1.70
1594056--1594196	71	2.0	72	87	1	203	31	14	7	46	1.72
1594056--1594228	71	2.4	70	81	8	188	30	14	7	47	1.72
1595073--1595098	13	2.0	13	100	0	52	46	23	15	15	1.83
1596444--1596530	38	2.3	37	90	4	129	39	3	6	50	1.46
1597146--1597192	22	2.1	22	100	0	94	27	8	8	55	1.59
1597577--1597673	21	4.8	21	78	3	92	29	24	16	28	1.97
1597785--1597828	21	2.2	19	80	11	52	31	15	15	36	1.90
1597790--1597828	21	1.9	20	89	5	60	33	17	15	33	1.92
1600527--1600603	20	3.8	20	75	8	75	35	22	18	24	1.96
1600749--1600788	20	2.0	20	85	4	55	35	37	15	12	1.85
1606715--1606741	2	13.5	2	100	0	54	51	0	0	48	1.00
1620193--1620256	27	2.4	27	97	0	119	40	4	17	37	1.70
1623809--1623834	2	13.0	2	100	0	52	50	0	0	50	1.00
1623912--1624010	32	3.1	32	80	11	105	43	19	9	28	1.81
1624434--1624461	3	9.3	3	100	0	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1624658--1624696	11	3.3	12	86	13	55	84	2	12	0	0.72
1624665--1624696	16	1.9	17	93	6	57	87	0	12	0	0.54
1624658--1624696	6	6.7	6	85	14	55	84	2	12	0	0.72
1624672--1624755	45	1.9	43	90	4	132	61	8	14	15	1.54
1625600--1625645	22	2.1	22	91	0	74	28	0	4	67	1.10
1625600--1625636	12	3.2	12	81	14	51	24	0	5	70	1.08
1627521--1627573	16	3.2	16	72	5	52	41	26	1	30	1.66
1627908--1627971	23	2.8	23	87	0	92	28	28	26	17	1.97
1627987--1628199	103	2.1	103	93	0	363	36	23	13	26	1.92
1631127--1631230	55	1.9	55	87	0	154	44	9	23	23	1.82
1637314--1638226	231	3.9	231	85	2	1107	32	15	17	35	1.91
1638748--1638785	7	5.6	7	90	6	60	84	2	13	0	0.73
1638748--1638785	13	2.8	14	88	4	60	84	2	13	0	0.73
1641810--1641850	17	2.4	17	87	0	55	26	19	24	29	1.98
1653912--1653948	2	18.5	2	100	0	74	48	0	0	51	1.00
1654518--1654580	29	2.1	30	85	5	83	36	12	6	44	1.68
1658294--1658321	12	2.3	12	100	0	56	53	7	14	25	1.66
1662154--1662195	16	2.6	16	84	3	57	57	0	21	21	1.41
1665774--1665806	17	1.9	17	93	0	57	39	0	30	30	1.57
1667852--1667886	18	1.9	18	88	0	52	0	14	2	82	0.77
1672351--1672388	18	2.1	19	90	5	60	63	5	7	23	1.42
1673248--1673310	26	2.4	26	91	0	99	30	31	17	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673885--1673923	16	2.4	16	87	8	53	66	0	17	15	1.25
1675874--1675937	29	2.2	30	94	2	112	35	14	6	43	1.70
1688492--1688537	19	2.4	19	85	7	67	13	19	10	56	1.66
1698532--1698561	14	2.1	14	93	0	51	30	0	10	60	1.30
1699583--1699678	31	3.1	31	78	0	102	32	21	19	26	1.97
1718243--1718284	2	20.5	2	95	4	75	50	2	0	47	1.14
1719091--1719238	77	1.9	78	83	4	192	37	10	4	47	1.58
1722738--1722787	23	2.2	23	92	3	84	22	24	34	20	1.97
1732093--1732137	22	2.0	23	95	4	83	51	26	8	13	1.70
1738043--1738357	56	5.5	56	81	10	357	44	9	3	42	1.52

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   27   28   29   30   31   32   
          33   34   35   36   37   38