genome.fa.s1174.2.7.7.80.10.50.1000.8.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: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2182627

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1247 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)
1509448--1509490	6	7.2	6	89	0	50	41	0	23	34	1.55
1513142--1513184	22	1.9	23	90	4	70	32	11	0	55	1.36
1529625--1529732	35	3.1	34	76	17	103	35	14	12	37	1.84
1531384--1531513	65	2.0	66	87	1	190	33	1	40	24	1.65
1536226--1536251	2	13.0	2	100	0	52	50	0	0	50	1.00
1536513--1536553	2	20.5	2	100	0	82	48	0	0	51	1.00
1536686--1537164	225	2.1	225	88	1	719	31	17	12	38	1.87
1537015--1537272	118	2.2	117	85	2	347	30	18	13	38	1.88
1539444--1539471	14	2.0	14	100	0	56	35	0	28	35	1.58
1546015--1546047	12	2.6	13	90	4	50	36	12	6	45	1.66
1547781--1547814	12	2.7	13	86	9	52	44	11	5	38	1.65
1550563--1550601	20	1.9	21	84	5	53	53	0	2	43	1.14
1558819--1558849	15	2.1	15	93	0	53	35	3	0	61	1.12
1558822--1558879	25	2.3	26	80	17	68	41	3	1	53	1.28
1558845--1558921	41	1.9	40	91	2	127	48	3	1	46	1.28
1558850--1558937	41	2.1	41	85	0	122	47	3	2	46	1.31
1559691--1559746	28	2.0	29	86	10	80	28	16	16	39	1.89
1559691--1559746	29	2.0	28	85	3	76	28	16	16	39	1.89
1565312--1565353	21	2.0	22	85	4	59	59	2	2	35	1.23
1567509--1568473	112	8.4	120	81	11	400	29	18	13	38	1.89
1567959--1568003	23	1.9	23	82	13	56	15	24	6	53	1.66
1567599--1568779	336	3.5	335	83	7	1301	29	18	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567722--1568574	112	7.6	113	88	4	1196	30	18	13	37	1.89
1568538--1568728	92	2.1	92	89	0	292	30	19	15	34	1.92
1569216--1569269	22	2.5	22	87	3	74	37	14	12	35	1.85
1571649--1571896	103	2.4	105	97	1	473	34	22	13	29	1.92
1571810--1572074	83	3.2	83	95	1	460	36	21	13	27	1.92
1574287--1574316	9	3.2	9	90	9	51	0	13	0	86	0.57
1576244--1576301	28	2.1	28	86	0	80	62	8	10	18	1.53
1576339--1576393	29	2.0	27	85	7	74	52	9	12	25	1.68
1576339--1576390	14	3.7	14	84	5	61	53	9	13	23	1.68
1582567--1582648	32	2.5	32	86	7	103	34	17	23	25	1.96
1582593--1582666	32	2.2	34	90	9	118	37	17	18	25	1.93
1583377--1583439	23	2.7	23	82	0	72	17	22	22	38	1.93
1591713--1592161	223	2.0	225	99	0	884	40	15	12	30	1.85
1593350--1593412	23	2.7	23	87	0	90	15	30	22	31	1.95
1593906--1593947	20	2.1	20	100	0	84	42	0	9	47	1.36
1595500--1595551	21	2.5	21	81	3	61	38	19	25	17	1.93
1595540--1595684	20	7.7	20	71	18	96	32	24	18	24	1.97
1595540--1595603	31	2.1	31	96	0	119	29	25	20	25	1.99
1595845--1595887	22	2.0	22	90	4	70	18	46	16	18	1.84
1596139--1596193	20	2.7	21	82	2	67	16	18	23	41	1.89
1597493--1597536	18	2.5	18	85	3	63	27	43	15	13	1.85
1598013--1598078	20	3.4	20	81	4	73	37	24	22	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1598068--1598123	14	3.8	14	82	13	76	48	25	17	8	1.76
1598052--1598138	31	2.8	32	94	5	151	45	22	19	11	1.82
1598052--1598143	17	5.7	18	74	19	87	44	22	20	11	1.84
1598176--1598204	13	2.3	13	94	5	51	10	13	27	48	1.75
1600075--1600110	14	2.6	14	90	0	54	30	0	22	47	1.52
1600193--1600231	20	2.0	20	94	0	69	46	30	10	12	1.75
1600289--1600397	20	5.6	20	92	1	177	17	23	24	33	1.96
1600605--1600675	20	3.5	20	100	0	142	19	30	19	29	1.97
1600823--1600862	21	2.0	21	85	5	55	25	45	7	22	1.78
1601406--1601459	24	2.2	24	90	0	81	22	16	20	40	1.91
1601634--1601658	12	2.1	12	100	0	50	72	0	28	0	0.86
1603920--1604046	33	3.8	33	86	4	193	42	18	22	15	1.89
1603921--1604053	66	2.0	66	95	0	239	41	18	22	17	1.90
1604061--1604117	14	3.7	14	75	20	60	8	24	22	43	1.81
1604046--1604127	33	2.5	33	95	0	146	12	23	20	43	1.85
1604075--1604127	19	3.1	19	69	25	62	9	24	20	45	1.81
1604241--1604277	14	2.6	14	91	0	65	45	24	0	29	1.53
1605626--1605692	21	3.2	21	68	4	55	19	20	35	23	1.95
1605626--1605748	42	2.9	41	79	7	113	22	18	36	21	1.95
1605966--1606150	91	2.0	93	90	6	297	46	18	12	22	1.82
1607838--1607992	19	8.8	19	64	22	61	41	20	25	13	1.88
1607887--1607975	14	5.6	14	67	23	52	37	23	26	12	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1607863--1607992	33	3.9	33	92	1	206	39	22	26	12	1.89
1607867--1607957	14	5.3	19	64	25	67	36	24	25	14	1.93
1607993--1608037	19	2.4	19	88	0	72	6	15	24	53	1.66
1608590--1608629	20	2.0	20	100	0	80	30	20	30	20	1.97
1608651--1608704	20	2.7	20	97	0	99	25	18	24	31	1.97
1608591--1608707	61	1.9	61	83	0	153	24	17	23	33	1.97
1608775--1608815	21	2.0	21	85	0	55	34	31	17	17	1.93
1609860--1609899	18	2.2	19	86	4	55	47	7	0	45	1.31
1610240--1610283	23	1.9	24	86	9	65	56	0	11	31	1.35
1610752--1610804	2	26.5	2	96	0	97	49	0	0	50	1.00
1613661--1613702	21	2.0	21	95	0	75	26	28	21	23	1.99
1613816--1613895	21	3.9	20	88	4	124	13	28	32	25	1.94
1613815--1613895	41	2.0	42	92	2	137	14	28	32	24	1.95
1615344--1615391	19	2.5	20	82	3	62	29	12	6	52	1.63
1616602--1616643	21	2.0	21	95	0	75	26	28	21	23	1.99
1616683--1616734	21	2.5	21	96	0	95	19	25	34	21	1.96
1616777--1616893	21	6.0	20	78	14	129	14	29	35	21	1.93
1616777--1616893	41	3.0	41	84	14	167	14	29	35	21	1.93
1618664--1618692	2	14.5	2	100	0	58	48	0	0	51	1.00
1619718--1619768	26	2.0	25	88	3	75	60	3	0	35	1.15
1619726--1619776	26	2.0	26	84	7	68	62	3	0	33	1.13
1620727--1620754	2	14.0	2	100	0	56	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1622607--1622636	2	15.0	2	100	0	60	50	0	0	50	1.00
1628488--1628633	39	3.7	39	85	0	166	19	26	21	32	1.97
1632879--1632967	18	4.9	18	91	0	133	19	20	30	30	1.97
1639031--1639081	18	2.8	18	96	0	93	15	19	35	29	1.93
1643140--1643166	2	13.5	2	100	0	54	51	0	0	48	1.00
1643324--1643395	24	3.0	24	85	0	99	50	16	13	19	1.79
1643339--1643395	12	4.8	12	76	8	62	47	17	17	17	1.83
1643664--1643720	27	2.1	27	93	0	96	35	21	12	31	1.90
1651962--1652047	44	2.0	44	95	0	154	13	22	46	17	1.83
1652511--1652586	21	3.7	21	80	3	100	40	18	25	15	1.90
1652494--1652567	20	3.7	20	78	3	85	41	18	21	17	1.90
1652494--1652586	41	2.3	41	98	0	177	40	18	23	17	1.90
1652513--1652647	41	3.3	41	82	6	132	38	20	21	19	1.94
1652575--1652669	20	4.7	20	80	2	91	34	24	17	23	1.96
1652856--1652898	22	2.0	22	90	0	68	20	41	16	20	1.90
1653154--1653191	20	1.9	20	88	0	58	13	15	21	50	1.78
1654813--1654857	18	2.5	18	88	0	72	26	44	15	13	1.83
1655343--1655409	20	3.4	20	81	2	73	38	23	22	14	1.92
1655398--1655455	14	3.9	14	77	16	62	48	22	17	12	1.80
1655382--1655472	32	2.8	33	93	3	157	47	20	18	13	1.82
1655489--1655546	14	3.9	14	75	16	62	12	17	22	48	1.80
1655484--1655557	32	2.3	33	92	2	123	12	18	20	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655560--1655597	20	1.9	19	89	5	58	15	21	26	36	1.93
1655535--1655601	19	3.5	19	75	4	71	16	22	22	38	1.92
1657941--1657994	24	2.2	24	86	0	72	24	16	18	40	1.90
1658166--1658190	12	2.1	12	100	0	50	72	0	28	0	0.86
1660429--1660578	33	4.4	37	72	20	128	42	19	22	16	1.90
1660449--1660574	33	3.8	33	84	5	175	42	18	22	16	1.88
1660452--1660581	66	2.0	65	93	1	224	42	17	22	17	1.89
1660574--1660636	19	3.3	19	84	4	81	15	19	20	44	1.87
1660583--1660636	20	2.8	19	91	5	90	12	20	20	46	1.83
1660743--1660791	14	3.6	14	91	5	82	42	24	0	32	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11