genome.fa.s8001.2.7.7.80.10.50.1000.8.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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  ( 2081 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)
1406528--1406577	21	2.4	21	100	0	100	24	44	0	32	1.54
1408817--1408876	21	2.9	21	85	2	86	13	23	35	28	1.92
1412675--1412714	21	1.9	21	90	10	64	37	10	0	52	1.35
1416682--1416712	2	15.5	2	100	0	62	48	0	0	51	1.00
1416736--1417248	36	13.6	36	80	12	285	45	3	5	45	1.44
1416774--1417248	38	12.4	38	83	11	315	45	2	5	45	1.41
1416951--1416985	2	17.5	2	100	0	70	51	0	0	48	1.00
1416998--1417325	75	4.5	72	86	7	418	43	0	5	49	1.32
1416971--1417325	36	9.9	36	85	9	442	44	0	5	48	1.32
1417321--1417388	37	1.9	36	88	8	104	16	4	0	79	0.89
1417319--1417386	10	6.8	9	78	20	64	17	2	0	79	0.86
1418577--1418610	18	1.9	17	94	5	59	11	14	0	73	1.10
1419318--1419342	12	2.1	12	100	0	50	8	0	8	84	0.79
1428145--1428223	31	2.5	31	89	0	122	34	16	18	30	1.94
1428813--1428960	65	2.3	64	84	6	183	30	22	18	29	1.97
1435919--1435962	21	2.1	21	86	0	61	9	40	15	34	1.79
1436280--1436327	19	2.5	19	93	0	78	14	4	22	58	1.54
1437145--1437193	19	2.6	19	84	9	57	24	28	20	26	1.99
1438056--1438101	22	2.1	22	88	4	67	47	0	4	47	1.21
1445723--1445752	15	2.0	15	100	0	60	26	26	13	33	1.93
1453299--1453353	28	2.0	28	100	0	110	16	21	36	25	1.94
1466702--1466783	29	2.8	29	90	1	119	31	14	12	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1468985--1469041	20	2.6	22	83	10	64	54	5	3	36	1.40
1468983--1469041	23	2.8	20	80	12	64	54	5	3	37	1.39
1469209--1469277	12	5.7	12	74	16	52	40	0	1	57	1.07
1469203--1469265	17	3.7	18	83	12	71	36	0	1	61	1.05
1469203--1469265	3	22.0	3	80	15	71	36	0	1	61	1.05
1469652--1469691	21	2.0	20	85	14	55	75	2	22	0	0.93
1470845--1470909	29	2.2	29	97	0	121	40	12	12	35	1.80
1472075--1472118	22	2.0	22	86	0	61	40	15	20	22	1.90
1472713--1472835	63	2.0	62	87	4	176	35	19	17	26	1.94
1472713--1472835	31	3.9	31	91	3	176	35	19	17	26	1.94
1474229--1474264	10	3.7	10	85	7	56	69	0	25	5	1.10
1477296--1477352	18	2.9	19	76	21	55	19	3	3	73	1.12
1478871--1478895	11	2.3	11	100	0	50	60	8	16	16	1.58
1478907--1478952	21	2.2	21	100	0	92	52	6	13	28	1.65
1483113--1483165	3	17.3	3	84	3	52	37	0	0	62	0.96
1484496--1484566	27	2.5	30	78	15	78	32	1	4	61	1.23
1485342--1485375	11	3.0	11	91	4	50	76	0	2	20	0.92
1486754--1486796	3	14.3	3	100	0	86	67	0	0	32	0.91
1488427--1488457	14	2.2	14	100	0	62	45	16	12	25	1.83
1488784--1489261	225	2.1	224	93	4	813	44	7	7	39	1.62
1489523--1489581	20	3.0	20	83	11	77	54	13	13	18	1.71
1489328--1489761	180	2.4	181	87	2	615	43	14	16	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489718--1489781	20	3.2	20	93	4	94	50	12	17	20	1.78
1492008--1492072	21	3.1	21	77	0	67	40	13	29	16	1.88
1492106--1492170	33	2.0	33	87	3	96	27	0	49	23	1.50
1493956--1494002	17	2.6	19	80	13	62	31	2	8	57	1.41
1494121--1495861	199	8.9	199	90	5	2818	36	15	16	31	1.90
1494485--1495043	177	3.0	178	88	7	766	36	15	16	30	1.90
1494121--1495861	398	4.4	398	94	4	3135	36	15	16	31	1.90
1494121--1495861	597	3.0	592	96	2	3103	36	15	16	31	1.90
1497338--1497406	3	23.0	3	77	0	57	34	7	34	23	1.82
1497334--1497406	12	6.1	12	81	0	65	34	8	34	23	1.84
1498903--1499389	183	2.7	182	94	1	850	34	14	16	33	1.90
1502254--1502326	23	3.2	23	88	0	101	34	4	21	39	1.73
1502750--1502786	18	2.1	18	89	0	56	32	5	10	51	1.60
1502742--1502788	24	2.0	24	86	0	67	34	4	14	46	1.64
1503042--1503126	39	2.2	38	87	4	127	48	18	14	18	1.81
1503547--1503619	23	3.2	23	88	0	101	34	4	21	39	1.73
1503977--1504043	23	3.0	23	82	2	82	34	4	20	40	1.73
1503345--1504812	426	3.5	426	95	2	2672	41	7	12	38	1.71
1504392--1504464	23	3.2	23	88	0	101	34	4	21	39	1.73
1509330--1509401	37	1.9	37	85	0	99	22	9	34	33	1.87
1519072--1519112	18	2.3	19	87	8	59	51	4	2	41	1.36
1521548--1521583	19	1.9	18	88	5	54	2	30	5	61	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522052--1522086	4	8.5	4	93	6	61	0	22	0	77	0.78
1529229--1529255	2	13.5	2	100	0	54	0	48	0	51	1.00
1530219--1530817	126	4.9	128	91	7	980	23	25	19	31	1.98
1530219--1530817	250	2.5	246	92	6	981	23	25	19	31	1.98
1531202--1531296	33	2.9	34	82	4	104	37	2	4	55	1.31
1531809--1531902	21	4.5	21	92	5	129	20	26	35	18	1.95
1533666--1533700	17	2.0	18	88	5	54	60	2	0	37	1.12
1533646--1533723	32	2.4	32	85	6	104	61	1	0	37	1.04
1533649--1533719	15	4.7	15	71	13	56	60	1	0	38	1.06
1534860--1534885	11	2.4	11	100	0	52	38	15	0	46	1.46
1536317--1536388	35	2.1	35	100	0	144	31	8	15	44	1.76
1542403--1542720	95	3.4	93	86	2	447	38	14	9	38	1.78
1544170--1544201	16	1.9	17	93	6	57	37	3	21	37	1.70
1545451--1545508	25	2.3	25	85	11	75	15	10	31	43	1.80
1553162--1553243	32	2.5	33	86	7	114	29	17	10	42	1.83
1553167--1553255	32	2.8	32	79	6	101	32	16	11	39	1.84
1558681--1558728	17	3.1	17	71	22	59	54	4	12	29	1.56
1558675--1558730	30	2.0	28	89	10	87	58	3	10	26	1.48
1560216--1560244	13	2.2	13	100	0	58	34	24	20	20	1.97
1561740--1561885	39	3.7	39	97	0	265	22	13	30	33	1.92
1565065--1565110	24	1.9	24	81	0	56	10	39	6	43	1.66
1566439--1566520	35	2.3	35	85	0	110	30	23	9	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1568413--1568445	3	11.0	3	100	0	66	66	0	0	33	0.92
1569563--1569606	18	2.4	18	92	0	70	20	2	2	75	1.03
1575641--1575718	24	3.3	23	76	7	84	60	12	7	19	1.56
1575644--1575687	14	3.1	14	83	0	52	59	13	9	18	1.60
1576870--1576963	3	30.7	3	71	12	66	58	7	29	4	1.45
1576883--1576949	13	5.5	13	70	20	56	56	10	28	4	1.52
1579554--1579598	21	2.1	22	87	4	65	53	4	15	26	1.61
1579642--1579850	104	2.0	104	99	0	409	44	3	20	31	1.69
1583908--1583969	20	2.8	22	73	14	65	29	16	24	30	1.96
1584266--1584311	9	4.9	10	79	15	53	32	2	13	52	1.52
1584264--1584313	19	2.7	18	84	3	64	34	2	12	52	1.50
1585533--1585594	23	2.7	23	82	5	81	19	25	24	30	1.98
1585707--1585787	39	2.1	37	80	13	85	30	4	23	40	1.76
1592488--1592556	24	2.9	24	80	2	77	21	24	23	30	1.99
1592690--1592729	19	2.1	19	85	0	53	32	2	17	47	1.61
1593190--1593230	21	2.0	21	95	0	73	29	24	21	24	1.99
1597251--1597277	14	1.9	14	100	0	54	55	0	14	29	1.40
1599556--1599615	19	2.9	20	85	9	68	16	26	35	21	1.95
1603408--1603447	21	1.9	21	85	10	55	35	10	2	52	1.48
1606924--1606953	14	2.2	13	94	5	51	0	33	0	66	0.92
1608407--1608467	24	2.6	24	76	2	61	19	24	24	31	1.98
1610383--1610424	18	2.3	18	95	0	75	66	7	7	19	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1610626--1610701	24	3.2	24	96	0	143	35	28	15	19	1.93
1611554--1611605	3	17.7	3	88	11	81	65	0	0	34	0.93
1611555--1611597	14	3.1	14	100	0	86	65	0	0	34	0.93
1611554--1611604	17	2.9	18	91	8	88	64	0	0	35	0.94
1611934--1611966	15	2.2	15	94	0	57	48	0	0	51	1.00
1615827--1615866	7	5.7	7	81	0	53	27	2	25	45	1.66
1617698--1617751	24	2.2	24	90	0	81	16	11	14	57	1.65
1620449--1620482	5	6.8	5	100	0	68	58	0	41	0	0.98
1623097--1623162	33	2.0	33	93	0	114	18	19	24	37	1.93
1627871--1627913	21	2.0	21	82	8	52	48	9	13	27	1.73

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