genome.fa.s8668.2.7.7.80.10.50.1000.8.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: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2122653

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1078 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)
1631358--1631432	2	37.5	2	100	0	150	50	0	0	49	1.00
1634100--1634130	16	1.9	16	93	0	53	51	12	0	35	1.40
1635366--1635502	60	2.3	60	92	0	220	23	32	28	15	1.95
1636572--1636633	26	2.4	26	100	0	124	22	11	12	53	1.71
1638844--1638912	32	2.2	32	94	0	120	40	20	7	31	1.80
1643253--1643363	55	2.0	55	98	0	213	38	27	15	18	1.90
1649933--1650301	20	18.5	20	85	4	458	34	26	18	20	1.96
1650982--1651028	24	2.0	24	87	8	69	25	14	21	38	1.92
1652322--1652642	19	18.4	19	78	18	369	47	18	20	13	1.83
1652322--1652623	33	8.8	33	84	12	243	47	18	20	13	1.83
1652550--1652604	14	3.6	14	78	21	65	49	20	20	10	1.78
1652350--1652664	52	6.0	52	83	11	412	46	17	21	14	1.83
1652671--1652771	19	5.6	19	85	12	142	14	23	17	43	1.87
1652671--1652771	33	2.8	37	78	18	140	14	23	17	43	1.87
1652878--1652914	14	2.6	14	91	0	65	45	21	0	32	1.52
1654895--1654951	14	3.7	14	77	20	60	45	22	21	10	1.82
1654876--1654968	33	2.8	33	95	0	168	47	21	20	10	1.80
1654839--1654973	19	7.6	19	76	16	128	45	23	19	11	1.82
1654969--1655097	19	7.3	19	75	17	125	8	17	28	45	1.77
1654969--1655060	33	2.8	33	93	3	150	7	18	28	45	1.76
1655129--1655595	93	5.0	93	99	0	918	46	19	12	21	1.83
1655129--1655595	185	2.5	186	99	0	918	46	19	12	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657284--1657373	14	5.7	14	74	23	81	42	23	25	8	1.83
1657276--1657390	33	3.5	33	95	0	212	45	20	24	9	1.81
1657283--1657395	19	6.8	18	72	23	88	43	22	24	9	1.83
1657407--1657461	14	3.6	14	73	21	56	9	25	23	41	1.83
1657391--1657461	33	2.2	33	94	0	124	8	22	25	43	1.81
1657402--1657483	33	2.5	33	89	2	119	9	25	21	42	1.84
1657414--1657502	20	4.8	20	72	19	75	12	24	19	43	1.85
1657581--1657651	33	2.2	33	92	0	115	47	18	22	11	1.80
1657833--1657887	22	2.5	22	81	0	74	20	16	40	23	1.91
1658033--1658225	20	9.6	20	80	5	210	19	19	25	35	1.96
1658033--1658225	60	3.2	60	81	0	242	19	19	25	35	1.96
1667230--1667298	29	2.4	29	97	2	131	57	20	10	11	1.62
1671825--1671855	2	15.0	2	93	6	53	48	0	3	48	1.17
1676456--1676480	10	2.5	10	100	0	50	68	0	0	32	0.90
1681902--1682230	162	2.0	163	97	2	624	25	17	35	21	1.95
1684301--1684455	75	2.1	75	93	0	265	41	12	25	20	1.88
1692695--1692739	16	2.9	16	90	6	67	46	26	13	13	1.80
1702262--1702374	33	3.4	33	74	13	131	39	7	13	39	1.72
1702295--1702405	35	3.2	35	73	14	131	38	9	11	39	1.75
1702255--1702405	68	2.2	68	100	0	302	40	7	12	39	1.72
1712824--1712922	8	12.9	8	75	13	75	70	2	0	27	0.98
1712824--1712905	36	2.2	36	82	6	103	71	2	0	25	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1712826--1712898	13	5.1	14	66	21	53	72	1	0	26	0.93
1712890--1712923	17	1.9	18	88	5	52	67	2	0	29	1.05
1718678--1718716	21	1.9	21	89	5	62	48	25	2	23	1.63
1719622--1719678	23	2.5	23	88	0	78	17	33	28	21	1.96
1720230--1720288	21	2.8	21	86	0	82	52	20	6	20	1.69
1721852--1721888	17	2.2	17	95	0	65	35	21	27	16	1.94
1721885--1721969	20	4.2	20	78	11	93	47	12	30	9	1.74
1721905--1721980	40	1.9	40	86	5	109	47	15	27	9	1.76
1725191--1725337	58	2.6	56	86	6	206	42	7	2	46	1.46
1726558--1726584	6	4.5	6	100	0	54	18	0	66	14	1.25
1738964--1739049	2	43.0	2	100	0	172	50	0	0	50	1.00
1740193--1740226	16	2.1	16	100	0	68	29	11	5	52	1.61
1748562--1748629	14	4.9	14	75	20	61	52	4	0	42	1.21
1748580--1748646	31	2.1	34	86	8	95	46	2	2	47	1.33
1748670--1748703	17	2.0	17	100	0	68	23	17	29	29	1.97
1751302--1751439	66	2.1	66	98	0	267	26	13	29	30	1.94
1752305--1752379	32	2.4	30	83	14	91	38	12	22	26	1.89
1752392--1752443	26	2.0	26	100	0	104	30	15	26	26	1.96
1759985--1760017	16	2.0	17	94	5	59	42	3	0	54	1.15
1760392--1760459	29	2.3	29	87	5	91	33	20	8	36	1.84
1761458--1761502	17	2.6	17	85	0	54	31	15	13	40	1.86
1761539--1761581	18	2.4	18	92	0	68	32	6	13	46	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1763495--1763573	24	3.3	24	100	0	158	35	11	34	18	1.87
1765322--1765351	14	2.1	14	93	0	51	50	0	0	50	1.00
1765315--1765352	13	2.9	14	84	7	53	39	0	0	60	0.97
1773756--1773795	19	2.1	19	85	0	53	52	7	0	40	1.30
1773756--1773798	20	2.2	19	83	4	50	53	6	0	39	1.28
1774508--1774617	35	3.1	35	83	8	125	36	0	21	40	1.60
1774759--1774822	29	2.2	29	100	0	128	29	7	31	31	1.86
1774759--1774833	29	2.6	29	91	4	98	32	9	29	29	1.88
1775351--1775434	38	2.2	38	100	0	168	7	30	14	47	1.71
1780506--1780542	11	3.3	11	96	3	65	72	0	27	0	0.84
1780885--1780939	28	2.0	28	82	7	67	40	3	0	56	1.17
1783262--1783297	2	18.0	2	100	0	72	50	0	0	50	1.00
1787371--1787395	12	2.1	12	100	0	50	28	16	16	40	1.89
1788385--1788419	17	2.1	17	88	0	52	28	8	5	57	1.52
1788531--1788645	40	2.9	40	85	0	158	44	13	15	26	1.83
1791657--1791690	12	2.7	13	90	9	61	17	55	14	11	1.68
1791643--1791708	18	4.0	18	74	22	72	16	53	16	13	1.74
1791646--1791707	30	2.1	30	93	0	106	16	53	16	14	1.74
1791686--1791724	13	3.0	13	84	0	51	20	43	17	17	1.88
1794182--1794274	47	2.0	47	85	4	125	23	15	21	39	1.91
1794182--1794274	24	4.0	24	84	9	111	23	15	21	39	1.91
1794504--1794622	24	5.0	24	85	4	141	25	14	19	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1794832--1794858	2	13.5	2	100	0	54	48	0	0	51	1.00
1799264--1799382	24	5.0	24	86	4	168	24	15	20	40	1.90
1799280--1799342	12	5.2	12	75	21	60	23	14	22	39	1.91
1799246--1799382	72	1.9	72	88	5	206	24	14	19	41	1.89
1802192--1802218	2	13.5	2	100	0	54	48	0	0	51	1.00
1804681--1804730	14	3.4	14	79	15	64	50	4	0	46	1.20
1804681--1804747	31	2.1	34	88	8	104	44	2	2	49	1.32
1804771--1804804	17	2.0	17	100	0	68	23	17	29	29	1.97
1808182--1808262	31	2.6	31	83	11	103	32	9	23	34	1.88
1808309--1808383	32	2.4	30	83	14	91	38	12	22	26	1.89
1808396--1808447	26	2.0	26	100	0	104	30	15	26	26	1.96
1815986--1816018	16	2.0	17	94	5	59	42	3	0	54	1.15
1816393--1816460	29	2.3	29	87	5	91	33	20	8	36	1.84
1817458--1817502	17	2.6	17	85	0	54	31	15	13	40	1.86
1817539--1817580	17	2.4	18	92	4	68	30	7	14	47	1.71
1819496--1819550	24	2.3	24	100	0	110	34	10	34	20	1.87
1821297--1821326	14	2.1	14	93	0	51	50	0	0	50	1.00
1821290--1821327	13	2.9	14	84	7	53	39	0	0	60	0.97
1827846--1827873	13	2.2	13	100	0	56	14	64	21	0	1.29
1828678--1828749	3	24.0	3	88	5	101	62	1	0	36	1.04
1828902--1829883	76	13.0	76	95	2	1743	35	21	21	21	1.96
1830553--1830602	21	2.3	22	86	3	66	38	16	12	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1830561--1830603	22	1.9	23	90	4	70	41	13	11	32	1.81
1830972--1831133	54	3.0	54	89	0	243	24	22	16	37	1.93
1833320--1833659	114	3.0	114	94	0	574	31	19	15	34	1.93
1835483--1835512	10	2.8	11	90	10	53	0	10	0	90	0.47
1841651--1841678	13	2.2	13	100	0	56	14	64	21	0	1.29
1842483--1842549	3	22.0	3	84	3	80	59	1	0	38	1.06
1842474--1842549	18	4.2	17	75	21	66	57	1	0	40	1.07
1846893--1846927	18	1.9	18	88	0	52	54	0	17	28	1.43
1850374--1850413	19	2.1	19	90	0	62	50	7	0	42	1.30
1851126--1851235	35	3.1	35	83	8	125	36	0	21	40	1.60

Tables:   1   2   3   4   5   6   7   8   9