genome.fa.s8364.2.7.7.80.10.50.1000.8.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  8  of  27  ( 3136 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)
1649628--1649654	6	4.5	6	100	0	54	85	0	14	0	0.61
1652646--1652675	6	5.0	6	91	0	51	86	0	13	0	0.57
1653735--1653804	25	2.8	25	97	2	133	55	0	0	44	0.99
1655020--1655093	31	2.4	31	83	0	85	37	18	16	27	1.92
1657255--1657284	16	1.9	15	93	6	51	20	0	26	53	1.46
1668772--1668865	21	4.5	21	93	1	145	38	17	23	21	1.93
1668855--1668947	20	4.7	20	84	0	123	31	27	16	24	1.96
1669134--1669177	22	2.0	22	86	0	61	20	40	15	22	1.90
1669440--1669498	20	3.0	20	87	0	73	15	18	22	44	1.87
1670817--1670864	18	2.7	18	93	0	87	27	45	12	14	1.81
1671416--1671471	20	2.8	20	78	2	60	39	19	23	17	1.92
1671444--1671505	19	3.5	19	75	20	71	46	19	17	16	1.84
1671520--1671577	14	3.8	14	77	20	62	10	15	22	51	1.73
1671521--1671593	33	2.2	33	97	0	137	12	17	20	49	1.79
1671577--1671652	20	3.8	20	87	1	109	17	25	21	36	1.94
1671566--1671652	40	2.2	40	85	2	122	16	24	21	37	1.93
1671640--1671678	20	2.0	20	94	0	69	25	12	28	33	1.93
1671579--1671663	40	2.1	40	84	4	109	20	22	21	36	1.95
1672022--1672081	21	2.9	21	78	7	77	23	45	13	18	1.84
1672022--1672089	21	3.1	23	67	14	63	23	47	11	17	1.81
1673508--1673546	14	2.8	14	84	0	51	35	0	17	46	1.49
1673673--1673726	14	3.5	14	77	22	63	48	20	20	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1673758--1673805	20	2.4	20	92	0	87	16	22	25	35	1.95
1674028--1674085	20	2.9	20	97	0	107	29	20	25	24	1.99
1674910--1674969	24	2.5	24	80	0	75	26	16	18	38	1.92
1677344--1677431	19	5.2	19	69	25	88	45	18	21	14	1.85
1677359--1677416	14	3.8	14	73	20	53	46	18	22	12	1.82
1677344--1677470	33	3.8	33	92	0	209	46	18	22	12	1.82
1677480--1677592	33	3.4	33	88	0	163	14	19	19	46	1.83
1677501--1677592	19	5.4	19	65	24	69	16	19	17	46	1.84
1677699--1677735	14	2.6	15	87	12	60	48	21	0	29	1.50
1679422--1679606	91	2.0	90	87	8	266	46	18	11	23	1.81
1681299--1681355	20	2.8	21	82	12	66	47	19	19	14	1.82
1681348--1681403	14	3.6	14	74	21	58	39	25	25	10	1.87
1681327--1681420	33	2.8	33	93	1	152	42	23	22	11	1.86
1681307--1681412	20	6.1	17	69	25	62	43	21	22	12	1.86
1681451--1681505	20	2.8	20	81	13	78	12	20	21	45	1.84
1681755--1681829	27	2.8	27	91	4	125	21	9	34	34	1.85
1682040--1682191	20	7.6	20	87	1	223	20	19	19	40	1.91
1682038--1682191	61	2.5	60	89	3	229	21	19	18	40	1.92
1682032--1682317	41	7.0	40	75	9	195	26	18	18	36	1.94
1682188--1682243	20	2.7	21	80	5	69	42	16	21	19	1.89
1682036--1682232	61	3.2	61	80	5	150	25	19	18	36	1.95
1682060--1682232	81	2.1	81	80	2	186	24	19	19	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682263--1682314	20	2.5	21	87	3	70	21	23	17	38	1.93
1682304--1682356	21	2.5	22	81	6	74	35	18	24	20	1.95
1688853--1688900	22	2.1	22	81	14	53	58	4	0	37	1.18
1689046--1689102	21	2.7	21	80	0	69	49	0	0	50	1.00
1689851--1689891	16	2.6	16	88	3	57	48	12	9	29	1.72
1702890--1702945	25	2.2	26	83	3	69	33	1	0	64	1.04
1703174--1703269	40	2.4	41	89	1	140	52	11	11	25	1.71
1703796--1703846	27	1.9	27	88	4	77	54	13	3	27	1.56
1708244--1708294	24	2.2	24	86	10	70	54	0	3	41	1.19
1708602--1708728	3	42.7	3	96	1	238	65	0	0	33	0.99
1711356--1711440	35	2.4	35	100	0	170	34	14	17	34	1.90
1712589--1712648	31	1.9	32	83	10	79	30	13	11	45	1.79
1738639--1738694	29	1.9	29	92	0	94	44	5	12	37	1.65
1743286--1743360	31	2.4	31	84	4	89	53	10	4	32	1.54
1744471--1744513	14	3.2	13	83	9	50	79	4	2	13	1.00
1745227--1745373	73	2.0	73	95	0	267	27	8	24	40	1.83
1762542--1762611	35	2.0	35	100	0	140	48	8	20	22	1.76
1772621--1772679	18	3.4	17	75	11	57	22	3	8	66	1.34
1773945--1774320	128	3.0	127	87	4	539	34	11	18	35	1.87
1787467--1787518	26	2.0	26	96	0	95	34	28	17	19	1.94
1790338--1790380	21	2.0	21	100	0	86	39	23	4	32	1.75
1799098--1799142	21	2.1	21	83	0	54	31	31	24	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1800514--1800723	103	2.0	103	92	0	348	28	11	24	35	1.91
1800743--1800805	23	2.7	23	80	9	74	20	25	25	28	1.99
1804265--1804313	22	2.2	22	82	7	64	32	30	28	8	1.86
1805435--1805487	24	2.2	24	83	9	65	30	3	24	41	1.72
1805603--1805825	103	2.2	103	93	1	376	26	14	24	34	1.93
1805841--1805901	23	2.7	23	86	0	86	21	27	24	26	1.99
1810214--1810250	14	2.6	14	100	0	74	32	0	0	67	0.91
1811947--1811984	18	2.1	18	90	5	58	78	10	7	2	1.04
1815473--1815545	19	3.5	22	72	20	61	57	0	0	42	0.98
1816688--1816722	13	2.7	13	90	0	52	45	0	0	54	0.99
1820311--1820352	17	2.4	18	76	11	52	52	0	2	45	1.13
1831156--1831228	29	2.4	30	81	4	76	28	20	4	46	1.69
1832631--1832707	37	2.1	37	85	4	102	48	1	3	46	1.28
1833420--1833458	17	2.4	17	91	4	62	48	5	0	46	1.24
1835362--1835474	10	11.8	9	75	12	73	15	26	29	29	1.96
1835383--1835480	19	5.2	18	82	15	117	13	28	30	27	1.94
1835362--1835436	29	2.5	30	89	8	118	17	26	26	29	1.97
1835363--1835474	29	3.9	27	83	9	107	14	26	29	29	1.95
1835363--1835480	38	3.1	37	84	11	141	14	27	28	28	1.95
1835477--1835519	22	2.0	22	95	0	77	18	46	23	11	1.82
1835509--1835546	7	5.4	7	100	0	76	15	28	28	26	1.96
1836416--1836539	63	2.0	63	82	6	153	16	28	29	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1842737--1842849	10	11.8	9	75	12	73	15	26	29	29	1.96
1842758--1842855	19	5.2	18	82	15	117	13	28	30	27	1.94
1842737--1842811	29	2.5	30	89	8	118	17	26	26	29	1.97
1842738--1842849	29	3.9	27	83	9	107	14	26	29	29	1.95
1842738--1842855	38	3.1	37	84	11	141	14	27	28	28	1.95
1842869--1842909	5	7.8	5	84	10	55	19	53	21	4	1.63
1842852--1842916	22	3.0	22	97	0	121	18	47	23	10	1.79
1842906--1842950	7	6.4	7	100	0	90	15	28	28	26	1.96
1851355--1851421	19	3.5	19	100	0	134	41	0	4	53	1.21
1858744--1858868	64	1.9	65	98	1	243	47	4	9	38	1.58
1859876--1859909	15	2.3	15	100	0	68	26	20	23	29	1.99
1863557--1863589	15	2.3	15	89	5	50	66	0	0	33	0.92
1864819--1864880	27	2.3	27	88	0	97	24	25	22	27	2.00
1872358--1872506	27	5.3	27	63	17	79	24	38	20	17	1.93
1872320--1872531	57	3.7	57	87	2	300	23	39	20	16	1.92
1878635--1878694	31	2.0	29	87	6	84	35	16	20	28	1.94
1885283--1885327	21	2.1	22	83	4	56	35	17	4	42	1.70
1885625--1885661	18	2.1	18	94	0	65	21	18	16	43	1.88
1890263--1890375	60	1.9	60	83	3	147	38	15	11	33	1.84
1894408--1894609	42	4.8	41	91	2	280	35	23	19	21	1.96
1894408--1894604	21	9.4	21	77	12	190	35	24	20	20	1.96
1903339--1903674	84	4.0	84	86	0	404	15	23	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1906787--1906894	55	2.0	54	90	1	171	45	10	14	29	1.78
1922081--1922163	37	2.2	38	79	16	93	50	2	1	45	1.22
1922558--1922594	20	1.9	19	89	10	58	45	10	24	18	1.81
1923470--1923542	38	1.9	38	83	5	94	47	1	4	46	1.30
1941396--1941435	2	20.0	2	100	0	80	50	0	50	0	1.00
1942064--1942088	6	4.2	6	100	0	50	0	36	16	48	1.46
1944158--1944206	23	2.2	22	82	10	55	44	2	2	51	1.24
1962105--1962143	19	2.1	19	100	0	78	30	0	20	48	1.50
1962156--1962183	3	9.3	3	100	0	56	67	0	0	32	0.91
1962413--1962486	25	2.9	25	88	6	105	8	31	0	60	1.25

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