genome.fa.s9081.2.7.7.80.10.50.1000.7.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: VEPZ01009081.1 Hibiscus syriacus cultivar Beakdansim tig00112523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1718667

Tables:   1   2   3   4   5   6   7   

This is table  7  of  7  ( 838 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)
1466386--1466514	52	2.5	52	74	14	140	45	28	16	9	1.78
1466532--1466588	14	3.7	14	72	20	51	12	21	21	45	1.83
1466515--1466607	33	2.8	33	91	0	159	11	20	20	47	1.81
1466510--1466624	19	6.6	19	71	18	97	11	20	22	46	1.82
1468548--1468583	14	2.6	14	90	0	54	30	0	22	47	1.52
1468606--1468835	20	11.5	20	85	1	237	19	18	24	36	1.94
1468822--1468904	21	4.0	21	73	6	78	25	16	24	33	1.96
1468802--1468900	42	2.4	43	77	11	100	21	18	23	37	1.94
1469666--1469696	16	1.9	16	93	0	53	25	0	0	74	0.82
1472187--1472240	22	2.5	22	72	3	56	57	1	0	40	1.09
1483302--1483334	2	16.5	2	100	0	66	48	0	0	51	1.00
1485598--1485636	15	2.7	15	96	4	71	66	0	5	28	1.12
1485599--1485646	15	3.3	14	91	5	69	68	0	4	27	1.07
1491533--1491729	75	2.6	76	86	3	263	20	24	31	22	1.98
1492311--1492354	17	2.6	17	85	7	63	56	29	0	13	1.38
1492306--1492357	9	6.4	8	77	18	54	59	26	0	13	1.34
1493128--1493164	18	2.1	18	100	0	74	43	13	21	21	1.87
1494179--1494218	21	1.9	21	89	0	62	10	25	40	25	1.86
1494201--1494261	20	2.9	21	87	7	79	18	26	34	21	1.96
1498059--1498098	21	1.9	21	85	10	55	35	10	2	52	1.48
1500005--1500201	74	2.6	77	85	4	258	19	24	32	23	1.98
1501963--1501992	14	2.1	14	100	0	60	13	20	16	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1518488--1518521	18	1.9	18	88	5	52	38	0	11	50	1.39
1518909--1518988	39	2.1	39	90	0	124	16	21	20	42	1.89
1519542--1519582	2	20.5	2	100	0	82	51	0	0	48	1.00
1519644--1519673	5	5.8	5	92	7	51	20	16	40	23	1.91
1523373--1523398	3	8.7	3	100	0	52	65	0	0	34	0.93
1523481--1523513	2	16.5	2	100	0	66	51	0	0	48	1.00
1524685--1524764	35	2.3	35	89	4	117	45	22	0	32	1.53
1524704--1524780	35	2.2	35	83	4	93	44	27	0	28	1.55
1525574--1525651	35	2.2	35	86	6	104	34	1	21	42	1.61
1537769--1537910	73	1.9	73	94	0	248	29	15	6	48	1.69
1539121--1539204	2	47.5	2	72	23	55	55	0	0	44	0.99
1539120--1539206	9	10.4	8	73	19	54	56	0	0	43	0.99
1539118--1539206	33	2.5	35	91	7	137	57	0	0	42	0.98
1541375--1541406	16	2.0	16	93	0	55	65	6	0	28	1.16
1541380--1541412	15	2.1	16	88	5	50	63	6	3	27	1.32
1547721--1547776	22	2.5	22	85	0	76	46	21	14	17	1.84
1547820--1547861	20	2.0	21	95	4	77	23	30	21	23	1.99
1548122--1548182	23	2.7	23	92	0	104	27	27	24	19	1.99
1549935--1550152	103	2.1	103	95	1	393	27	13	22	37	1.91
1550169--1550234	23	2.9	23	86	0	87	22	25	24	27	2.00
1550556--1550773	103	2.1	103	96	1	402	26	13	22	37	1.91
1550790--1550855	23	2.9	23	83	0	78	24	25	22	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549881--1551132	621	2.0	621	99	0	2450	29	12	22	34	1.91
1556707--1556769	31	2.0	32	87	3	92	38	23	7	30	1.84
1561116--1561151	6	6.0	6	93	0	63	47	0	36	16	1.47
1564883--1564915	16	2.1	16	100	0	66	6	12	24	57	1.57
1569686--1569766	41	2.0	41	92	2	137	40	11	12	35	1.78
1572615--1572673	31	1.9	31	100	0	118	42	6	6	44	1.57
1581020--1581050	11	2.7	11	95	5	53	16	9	0	74	1.07
1583150--1583428	140	2.0	140	97	2	526	34	7	17	40	1.77
1595083--1595304	31	7.2	31	96	0	417	33	15	11	39	1.84
1595814--1596037	64	3.5	63	82	6	238	28	18	20	33	1.96
1597393--1597436	15	2.6	17	79	17	56	29	36	20	13	1.91
1597405--1597438	15	2.3	15	100	0	68	35	32	17	14	1.91
1597522--1597602	29	2.8	29	96	3	146	17	22	16	44	1.86
1598004--1598109	45	2.4	45	81	10	119	28	15	19	36	1.92
1598176--1598203	14	2.0	14	100	0	56	35	14	21	28	1.92
1602313--1602345	16	2.1	16	100	0	66	57	24	12	6	1.57
1602411--1602485	10	7.7	10	69	21	61	57	21	12	9	1.62
1602415--1602479	16	4.1	16	95	0	121	56	23	12	7	1.61
1603230--1603285	14	4.3	14	80	17	66	53	25	12	8	1.67
1603210--1603284	24	3.1	24	88	3	98	56	21	10	12	1.66
1605569--1605649	29	2.8	28	94	3	135	17	23	14	44	1.86
1609274--1609351	21	3.7	21	73	0	75	24	26	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611553--1611695	60	2.4	60	82	1	162	22	35	23	18	1.96
1612260--1612344	17	5.0	17	75	16	86	34	2	0	63	1.07
1612260--1612316	19	3.1	18	87	9	80	33	0	0	66	0.92
1617587--1617697	34	3.0	39	65	17	108	43	10	11	34	1.76
1617675--1617734	29	2.1	29	93	0	102	46	13	8	31	1.72
1617905--1617948	17	2.6	17	85	3	54	50	2	2	45	1.27
1618948--1619030	36	2.3	36	83	2	96	43	9	16	30	1.80
1620017--1621059	113	9.4	112	90	2	1609	45	13	15	25	1.82
1620017--1621053	330	3.1	333	92	2	1690	45	13	15	25	1.82
1621366--1621404	19	2.1	19	95	0	69	20	38	15	25	1.92
1621303--1621511	65	3.3	63	82	9	219	29	25	17	27	1.97
1629036--1629079	21	2.1	21	82	0	52	9	34	18	38	1.82
1630077--1630115	19	2.1	19	95	0	69	20	38	15	25	1.92
1630063--1630223	65	2.5	65	86	3	218	30	26	16	27	1.96
1630063--1630243	64	2.8	64	83	2	220	29	26	17	27	1.97
1636236--1636280	22	2.0	22	83	8	56	53	0	2	44	1.13
1636596--1636622	2	13.5	2	100	0	54	48	0	0	51	1.00
1636769--1636799	2	15.5	2	100	0	62	48	0	0	51	1.00
1638182--1638225	16	3.0	15	83	9	56	20	15	25	38	1.92
1639539--1639578	2	20.0	2	100	0	80	0	50	0	50	1.00
1643155--1643252	48	2.0	48	100	0	196	36	15	14	33	1.88
1666818--1666881	24	2.7	24	77	0	65	29	12	9	48	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667047--1667098	23	2.3	23	86	0	68	38	9	19	32	1.84
1673117--1673159	20	2.2	20	86	0	59	51	6	6	34	1.56
1676022--1676048	4	6.8	4	100	0	54	77	0	0	22	0.76
1676523--1677064	270	2.0	270	98	0	1039	29	20	19	30	1.97
1683421--1683496	32	2.4	32	95	0	134	25	21	18	35	1.95
1687448--1687490	23	1.9	22	90	4	68	72	4	0	23	1.04
1690186--1690239	20	2.7	20	100	0	108	29	29	3	37	1.75
1693616--1693673	21	2.8	20	77	12	55	60	3	3	32	1.30
1693635--1693686	12	4.4	12	81	11	63	59	5	1	32	1.32
1696354--1696421	18	3.8	18	94	3	111	22	23	10	44	1.83
1696562--1696702	54	2.7	53	82	4	160	44	20	7	26	1.79
1696609--1697248	54	11.7	54	81	5	617	42	15	10	31	1.81
1696609--1697202	109	5.5	109	84	6	552	42	15	10	31	1.80
1699226--1699335	42	2.6	41	83	11	123	0	15	4	79	0.95
1699210--1699339	53	2.4	54	83	12	162	2	14	3	79	0.98
1699291--1699340	23	2.1	24	79	17	52	0	12	4	84	0.76
1699225--1699329	12	8.4	12	74	18	81	0	16	2	80	0.89
1699264--1699357	42	2.3	42	82	12	106	3	12	5	78	1.03
1699245--1699359	53	2.2	53	84	7	146	2	14	4	78	1.02
1700709--1700759	21	2.3	23	80	9	63	60	7	15	15	1.56
1703436--1703504	12	5.5	13	73	16	56	62	4	2	30	1.29
1703459--1703506	25	1.9	25	95	0	87	62	6	2	29	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709512--1709578	15	4.8	15	70	17	54	49	0	0	50	1.00
1709498--1709582	40	2.2	38	89	4	125	49	0	0	50	1.00
1712312--1712336	8	3.1	8	100	0	50	60	0	40	0	0.97
1712960--1713056	47	2.1	47	100	0	194	54	20	2	22	1.55
1713046--1713090	21	2.1	21	92	8	74	57	22	8	11	1.60
1715828--1715870	19	2.3	19	100	0	86	44	13	18	23	1.86
1716720--1716803	42	2.0	42	92	0	141	33	15	19	32	1.93
1717759--1717902	70	2.0	71	95	1	263	25	13	23	37	1.92

Tables:   1   2   3   4   5   6   7

The End!