genome.fa.s482.2.7.7.80.10.50.1000.8.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: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2886609

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

This is table  8  of  16  ( 1801 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)
1370919--1371062	73	2.0	74	92	1	245	24	18	30	27	1.97
1371026--1371103	21	3.7	21	89	0	120	20	19	37	23	1.95
1371325--1371364	21	1.9	21	89	0	62	50	10	10	30	1.69
1373941--1374043	21	4.9	21	78	11	120	22	19	35	22	1.96
1375313--1375346	17	2.0	17	88	0	50	26	29	11	32	1.92
1381032--1381150	6	19.8	6	79	0	67	41	29	10	18	1.85
1381060--1381144	30	2.8	30	94	0	143	37	30	15	16	1.90
1381102--1381168	18	3.7	18	75	0	71	41	31	11	14	1.83
1381060--1381168	30	3.4	30	81	14	110	38	31	14	15	1.88
1381093--1381168	36	2.1	36	90	0	116	40	31	11	15	1.84
1389069--1389122	24	2.3	24	81	15	69	46	5	12	35	1.66
1392208--1392255	23	2.1	23	88	0	69	35	12	18	33	1.89
1392985--1393021	18	2.1	18	89	0	56	51	10	5	32	1.60
1393225--1393289	23	2.8	23	90	0	94	38	18	7	35	1.80
1393435--1393501	30	2.2	29	82	10	73	43	0	4	52	1.21
1393646--1393697	23	2.3	22	90	6	77	44	19	1	34	1.62
1393656--1393718	23	2.7	23	90	0	90	38	19	6	36	1.77
1394087--1394154	23	3.0	23	86	0	100	38	17	7	36	1.78
1393227--1394153	429	2.2	422	98	0	1048	38	13	7	39	1.74
1394378--1394716	184	1.8	184	96	0	624	34	15	14	35	1.88
1394954--1395006	24	2.2	24	83	6	63	26	7	13	52	1.66
1395151--1395197	20	2.4	19	79	10	58	19	17	8	55	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395319--1395364	20	2.3	20	89	10	76	17	17	10	54	1.70
1396714--1396808	2	47.5	2	100	0	190	50	0	0	49	1.00
1397453--1397512	20	2.9	19	72	16	50	56	3	1	38	1.26
1398028--1398084	2	28.5	2	100	0	114	49	0	0	50	1.00
1398886--1398926	22	1.9	21	85	14	57	34	7	0	58	1.26
1398892--1398955	23	2.8	23	81	6	60	34	7	3	54	1.45
1402064--1402111	3	14.7	3	79	16	51	62	2	2	33	1.18
1404089--1404121	3	11.0	3	100	0	66	0	0	33	66	0.92
1405053--1405083	15	2.1	15	93	0	53	32	3	0	64	1.09
1405282--1405320	21	1.9	20	89	5	60	43	30	0	25	1.55
1407059--1407083	13	1.9	13	100	0	50	48	0	0	52	1.00
1413780--1413808	13	2.2	13	100	0	58	55	13	24	6	1.63
1422897--1422936	2	20.0	2	100	0	80	50	0	0	50	1.00
1436406--1436513	3	35.7	3	85	5	146	30	0	3	65	1.10
1436406--1436512	40	2.7	40	97	1	198	29	0	3	66	1.09
1436598--1436671	25	3.0	25	92	2	114	37	18	14	28	1.91
1438553--1438682	63	2.1	63	82	2	154	29	9	8	53	1.62
1445635--1445776	51	2.8	51	88	3	169	42	7	13	36	1.71
1445684--1445763	25	3.2	25	68	16	74	42	7	16	33	1.76
1445697--1445781	26	3.3	26	68	21	79	41	8	12	37	1.74
1445674--1445776	51	2.0	51	98	0	197	42	7	14	34	1.75
1452458--1452562	51	2.1	51	88	0	156	45	8	13	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1458248--1458341	39	2.3	41	81	3	111	40	12	13	32	1.83
1458286--1458320	17	2.1	17	89	5	54	40	8	8	42	1.66
1458302--1458356	24	2.3	24	90	6	85	40	14	14	30	1.86
1458302--1458356	23	2.3	25	87	12	80	40	14	14	30	1.86
1463965--1463996	11	2.9	11	95	0	55	31	6	25	37	1.81
1471025--1471072	20	2.4	20	86	10	71	39	0	4	56	1.19
1471052--1471095	16	2.8	16	82	6	54	43	0	2	54	1.12
1476546--1476575	2	15.0	2	100	0	60	50	0	0	50	1.00
1487728--1487770	21	2.0	21	100	0	86	32	13	0	53	1.41
1490595--1490633	20	2.0	20	85	10	53	58	2	2	35	1.25
1494939--1494983	14	2.9	16	80	12	58	37	6	0	55	1.26
1501402--1501674	136	2.0	136	96	2	505	34	4	12	48	1.62
1502021--1502093	2	37.0	2	94	2	130	49	1	0	49	1.09
1505069--1505164	41	2.3	41	80	8	106	29	15	21	33	1.94
1511167--1511464	35	8.3	35	75	16	240	44	3	6	45	1.46
1511167--1511464	39	8.3	36	74	16	207	44	3	6	45	1.46
1511185--1511463	146	1.9	139	82	11	341	44	3	6	45	1.47
1511234--1511464	105	2.2	104	84	11	283	44	3	5	47	1.42
1511273--1511463	72	2.8	69	83	13	227	46	2	5	46	1.39
1511471--1511541	19	3.7	19	75	15	67	36	1	2	59	1.21
1511492--1511538	3	15.3	3	82	12	60	34	0	2	63	1.06
1511492--1511538	16	2.9	16	87	9	60	34	0	2	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512615--1512648	16	2.1	16	89	10	52	20	2	0	76	0.92
1512655--1512696	17	2.4	18	88	4	59	4	9	4	80	0.99
1512654--1512702	18	2.6	19	84	12	66	8	8	4	79	1.04
1512737--1512824	9	9.9	9	74	22	62	19	5	0	75	1.00
1512838--1512918	29	2.8	27	78	12	81	19	3	1	75	1.02
1512838--1512919	14	5.9	13	72	22	53	19	3	1	75	1.02
1512834--1512886	18	2.9	18	75	10	54	24	3	0	71	1.02
1512838--1512919	30	2.8	29	77	16	89	19	3	1	75	1.02
1514718--1514746	14	2.0	15	93	6	51	13	6	3	75	1.13
1515538--1515799	94	2.7	94	87	4	355	32	18	17	31	1.94
1517206--1517320	48	2.5	45	85	4	149	32	20	7	39	1.82
1521144--1521283	34	4.1	31	75	17	102	7	17	2	72	1.20
1521160--1521283	34	3.6	33	81	13	110	6	17	3	72	1.19
1521144--1521283	17	8.2	17	71	19	89	7	17	2	72	1.20
1521179--1521227	22	2.2	23	89	10	75	4	18	4	73	1.15
1521198--1521272	18	4.4	16	73	17	62	4	16	4	76	1.10
1521162--1521283	35	3.5	35	76	15	103	6	17	3	72	1.19
1527897--1528543	84	7.7	84	85	1	832	31	25	19	23	1.98
1529231--1529277	20	2.3	20	100	0	94	17	25	42	14	1.87
1535773--1535822	21	2.3	22	86	6	66	26	30	30	14	1.94
1537010--1537062	21	2.5	22	90	6	76	24	20	5	49	1.71
1537016--1537062	21	2.3	21	96	3	87	25	19	6	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545367--1545588	117	1.9	117	84	5	297	29	13	9	46	1.75
1547933--1548165	40	6.2	36	77	13	163	45	4	6	43	1.49
1547973--1548208	107	2.2	104	83	10	282	44	4	5	44	1.47
1547924--1548229	73	4.3	68	74	18	223	45	4	5	44	1.48
1547923--1548233	35	8.8	35	75	16	193	44	4	6	45	1.49
1548013--1548227	105	2.0	104	82	11	253	45	3	5	45	1.44
1548118--1548256	34	4.3	32	76	17	110	44	3	5	46	1.42
1548271--1548319	24	2.0	24	84	7	64	30	0	2	67	1.02
1548271--1548319	13	3.8	13	84	10	66	30	0	2	67	1.02
1549478--1549525	18	2.6	19	74	9	55	16	8	2	72	1.18
1549494--1549597	16	6.1	16	69	17	50	19	7	1	71	1.20
1549668--1549698	11	2.8	11	95	0	53	19	0	6	74	1.03
1549640--1549701	29	2.1	29	82	14	74	20	1	3	74	1.05
1550095--1550124	2	15.0	2	100	0	60	50	0	0	50	1.00
1550148--1550195	24	2.0	24	95	0	87	41	0	31	27	1.56
1556232--1556271	2	20.5	2	84	5	55	42	0	5	52	1.23
1557705--1557729	9	2.8	9	100	0	50	12	0	0	88	0.53
1562877--1562921	23	2.0	23	90	0	72	24	26	26	22	2.00
1562889--1563205	151	2.1	149	93	3	539	34	21	17	26	1.96
1564093--1564127	18	1.9	18	88	11	54	22	17	5	54	1.64
1564619--1564779	64	2.5	64	82	5	182	27	19	18	34	1.95
1567945--1568246	149	2.0	149	95	1	543	35	20	16	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1568791--1568826	2	18.0	2	100	0	72	50	0	0	50	1.00
1569157--1569191	18	1.9	18	88	11	54	22	17	5	54	1.64
1569683--1569843	64	2.5	63	84	8	191	27	21	18	33	1.96
1575413--1575544	66	2.0	67	85	5	178	51	11	26	10	1.70
1575515--1575558	22	2.1	21	83	8	54	77	2	20	0	0.88
1576038--1576094	1	57.0	1	76	0	51	87	8	1	1	0.68
1576038--1576094	11	5.7	10	79	20	66	87	8	1	1	0.68
1576037--1576094	21	2.9	21	82	15	77	86	10	1	1	0.73
1576038--1576094	19	2.8	20	86	5	80	87	8	1	1	0.68
1576037--1576092	28	2.0	28	86	6	78	85	10	1	1	0.74

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