genome.fa.s9587.2.7.7.80.10.50.1000.7.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  7  of  29  ( 3457 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)
1458946--1458990	11	4.1	11	82	5	56	71	4	11	13	1.29
1458946--1458987	22	1.9	22	90	9	68	69	4	11	14	1.34
1460150--1460199	24	2.1	24	85	7	66	24	2	14	60	1.45
1466128--1466198	21	3.0	25	71	23	71	12	18	0	69	1.20
1466128--1466218	47	2.0	46	82	6	112	12	20	0	67	1.23
1469486--1469535	24	2.1	24	85	7	66	24	2	14	60	1.45
1470996--1471081	33	2.7	32	89	3	136	12	11	37	38	1.80
1470685--1471270	264	2.2	255	84	7	730	27	11	19	40	1.87
1471666--1471849	65	2.8	64	80	8	203	29	23	20	26	1.98
1471830--1471871	21	2.0	21	95	0	75	28	21	33	16	1.95
1472863--1472908	17	2.7	17	86	10	67	28	30	8	32	1.87
1472985--1473023	19	2.1	19	90	0	60	74	5	2	17	1.12
1475106--1475144	14	2.8	14	100	0	78	64	20	7	7	1.45
1479171--1479221	23	2.2	23	80	13	59	35	1	0	62	1.06
1479178--1479222	23	1.9	23	90	4	72	33	2	0	64	1.06
1480032--1480078	20	2.4	19	79	10	58	55	10	17	17	1.69
1479820--1480293	182	2.6	183	88	2	704	42	13	17	27	1.86
1480214--1480260	20	2.4	19	82	10	67	53	10	17	19	1.72
1480223--1480265	20	2.3	19	88	11	63	51	11	16	20	1.75
1482492--1482556	21	3.1	21	93	0	103	41	10	30	16	1.83
1482590--1482655	33	2.0	33	90	0	105	28	0	48	22	1.51
1484444--1484492	19	2.6	19	96	0	89	32	2	10	55	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1484726--1485386	200	3.4	199	83	9	905	37	15	17	29	1.91
1484969--1485335	180	2.0	179	94	0	635	35	14	19	30	1.92
1486894--1486963	6	11.7	6	87	0	68	38	5	32	22	1.78
1486894--1486963	12	5.8	12	91	0	86	38	5	32	22	1.78
1486894--1486963	18	3.9	18	86	0	77	38	5	32	22	1.78
1486911--1486964	3	18.0	3	84	0	72	37	3	33	25	1.74
1488168--1488914	178	4.1	182	90	5	1101	35	14	16	33	1.89
1492248--1492466	87	2.6	86	89	4	340	33	13	8	44	1.75
1492309--1492374	23	2.7	23	79	6	78	33	12	7	46	1.69
1493034--1493067	14	2.4	14	95	0	59	26	5	8	58	1.51
1500685--1500801	55	2.1	55	82	0	144	44	10	21	23	1.83
1501114--1501150	13	3.1	13	88	11	53	21	16	13	48	1.80
1501118--1501150	6	5.5	6	86	13	50	21	18	15	45	1.85
1504271--1504491	114	1.9	114	86	1	309	31	17	27	23	1.97
1505715--1506596	36	24.3	36	87	2	1187	36	23	19	21	1.95
1506835--1506859	13	1.9	13	100	0	50	32	24	20	24	1.98
1506890--1507141	80	3.2	80	87	1	362	33	16	19	30	1.94
1507130--1507154	13	1.9	13	100	0	50	32	24	20	24	1.98
1511060--1511092	14	2.3	15	85	15	52	33	6	0	60	1.21
1516187--1516394	104	2.0	104	100	0	416	37	14	26	21	1.92
1521291--1521316	7	3.7	7	100	0	52	0	11	0	88	0.52
1522573--1522619	3	15.7	3	100	0	94	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1522759--1522873	41	2.8	42	86	2	151	26	24	19	29	1.98
1522836--1523694	111	7.7	111	85	2	1023	27	15	25	32	1.95
1525601--1525649	6	7.5	6	78	17	53	4	16	0	79	0.88
1525647--1525671	13	1.9	13	100	0	50	20	0	0	80	0.72
1525601--1525676	20	3.8	20	84	8	75	9	11	0	78	0.95
1525924--1525964	2	20.5	2	100	0	82	51	0	0	48	1.00
1527028--1527064	13	2.6	15	79	16	51	45	10	29	13	1.77
1527002--1527064	14	4.5	14	74	18	51	46	14	25	14	1.82
1529917--1529944	12	2.3	12	100	0	56	78	7	0	14	0.95
1530755--1530823	3	22.7	3	85	8	86	65	1	2	30	1.16
1531533--1531583	16	3.2	16	88	0	75	50	27	7	13	1.69
1531528--1531605	32	2.4	32	80	0	75	51	24	10	14	1.73
1531592--1531660	32	2.1	34	84	10	90	42	20	14	23	1.89
1531889--1531944	19	2.9	19	78	17	62	57	0	0	42	0.99
1532760--1532800	2	20.5	2	100	0	82	48	0	0	51	1.00
1533892--1533957	19	3.6	18	78	14	73	50	6	0	43	1.27
1533967--1534023	5	11.4	5	74	7	53	71	5	5	17	1.23
1533982--1534023	20	2.1	20	95	0	75	73	2	7	16	1.15
1537121--1537150	16	1.9	15	93	6	51	33	3	20	43	1.68
1539220--1539252	6	5.5	6	92	0	57	48	0	48	3	1.17
1546278--1546318	16	2.6	16	88	0	55	31	2	24	41	1.68
1546514--1547181	170	3.9	168	77	7	516	29	17	17	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549963--1549999	17	2.1	19	85	10	51	48	10	0	40	1.38
1550934--1550969	18	1.9	19	88	5	56	72	0	0	27	0.85
1550934--1550973	19	2.2	18	86	4	53	75	0	0	25	0.81
1558742--1558788	2	24.0	2	95	4	87	48	0	0	51	1.00
1559339--1559382	21	2.1	21	82	0	52	36	15	38	9	1.80
1560939--1560993	21	2.5	21	79	5	65	23	23	25	27	2.00
1566327--1566368	21	1.9	23	85	9	61	42	9	4	42	1.58
1574246--1574329	31	2.9	29	77	7	80	40	7	16	35	1.76
1576983--1577053	36	2.0	36	100	0	142	33	18	19	28	1.95
1584958--1585039	22	3.9	21	80	7	103	36	14	20	28	1.92
1584966--1585056	42	2.2	42	90	4	139	36	15	21	26	1.93
1584985--1585056	20	3.5	20	74	10	65	36	15	23	25	1.94
1585377--1585648	55	5.0	55	90	0	420	37	12	16	33	1.86
1585611--1585685	37	2.0	37	92	0	123	44	9	10	36	1.72
1585556--1585827	92	3.0	92	95	0	481	38	11	14	35	1.82
1585703--1585777	37	2.0	37	94	0	132	42	9	10	37	1.72
1585740--1586108	55	6.7	55	93	1	632	36	12	16	34	1.86
1601943--1601981	21	1.9	20	85	15	53	25	10	23	41	1.86
1602033--1602090	13	4.5	13	79	12	50	79	6	13	0	0.93
1603565--1603627	28	2.2	28	100	0	126	38	19	9	33	1.84
1606318--1606499	45	4.0	45	86	2	240	37	6	21	33	1.80
1608864--1609942	544	2.0	544	92	1	1795	30	16	19	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611089--1611127	20	1.9	21	89	5	62	46	20	15	17	1.84
1611069--1612262	182	6.5	182	89	1	1743	43	13	15	27	1.84
1611069--1612262	365	3.3	363	90	1	1858	43	13	15	27	1.84
1611075--1612262	547	2.2	545	89	2	1799	44	13	15	27	1.83
1612650--1612694	19	2.4	19	92	3	74	42	0	20	37	1.52
1612940--1612978	18	2.2	18	86	9	53	46	7	5	41	1.55
1613941--1613996	24	2.5	22	77	13	60	39	1	8	50	1.44
1614675--1614713	18	2.2	18	95	0	69	53	0	41	5	1.23
1616181--1616229	19	2.6	19	90	3	73	30	2	10	57	1.43
1616850--1618059	199	6.1	199	90	2	1910	41	15	15	28	1.87
1616576--1618054	398	3.8	395	92	2	2374	41	15	15	27	1.87
1616908--1618119	400	3.0	399	93	1	2040	40	15	15	28	1.87
1618399--1618435	15	2.5	15	86	0	56	16	51	2	29	1.58
1619595--1620832	199	6.2	198	90	2	1831	42	15	14	27	1.85
1623621--1624074	182	2.5	182	91	0	719	42	12	16	27	1.84
1624674--1624721	23	2.1	23	88	0	69	39	12	8	39	1.73
1629277--1629311	2	17.5	2	100	0	70	48	0	0	51	1.00
1632961--1633238	20	13.6	20	75	5	171	38	18	21	20	1.93
1633045--1633236	40	4.7	40	81	5	231	37	16	23	22	1.94
1633045--1633236	83	2.3	83	92	2	318	37	16	23	22	1.94
1633325--1633386	6	10.5	6	98	1	117	32	51	16	0	1.44
1634198--1634249	20	2.6	20	93	0	86	9	17	21	51	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642277--1642315	15	2.6	15	91	0	60	12	66	12	7	1.43
1642256--1642307	26	2.1	26	85	7	72	11	63	17	7	1.50
1645172--1645200	15	1.9	15	100	0	58	20	20	37	20	1.94
1649779--1649807	15	1.9	15	100	0	58	20	20	37	20	1.94
1651924--1651958	7	5.0	7	96	0	52	5	14	14	65	1.44
1652163--1652318	64	2.4	64	88	4	235	31	19	21	27	1.97
1654982--1655061	24	3.5	23	71	19	78	28	21	23	26	1.99
1654982--1655076	45	2.1	44	85	12	124	28	20	24	27	1.99
1655018--1655076	24	2.6	23	84	7	77	30	18	23	27	1.98
1660880--1661031	64	2.4	63	88	4	218	32	18	21	28	1.96

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