genome.fa.s8245.2.7.7.80.10.50.1000.9.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   30   31   32   
          33   

This is table  9  of  33  ( 3922 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)
1544907--1545124	85	2.6	85	81	2	251	30	20	17	32	1.95
1544986--1545189	42	4.8	44	72	13	131	27	24	14	32	1.95
1544941--1545080	40	3.3	40	70	14	102	30	20	17	32	1.95
1545111--1545192	42	2.0	42	92	0	137	23	26	15	34	1.95
1545422--1545561	72	1.9	73	80	1	165	32	22	12	31	1.92
1545636--1545688	21	2.7	19	70	13	54	50	0	0	49	1.00
1557408--1557471	29	2.2	29	97	0	119	34	1	15	48	1.55
1559464--1559527	20	3.2	20	86	4	94	26	12	7	53	1.66
1559455--1559517	19	3.3	19	86	6	92	23	12	6	57	1.58
1560361--1560508	59	2.5	58	90	3	215	44	3	4	47	1.40
1561135--1561181	21	2.2	21	100	0	94	27	34	19	19	1.96
1561196--1561373	42	4.3	40	84	5	189	21	17	23	37	1.94
1561206--1561324	61	2.0	60	81	6	141	21	17	24	36	1.94
1561295--1561422	61	2.1	61	88	0	193	25	17	21	35	1.95
1561221--1561372	82	1.9	81	90	5	243	21	16	23	38	1.92
1561202--1561421	103	2.1	102	85	5	291	22	17	23	36	1.94
1562242--1562417	21	8.4	21	71	14	148	35	24	18	21	1.96
1562242--1562376	63	2.1	63	93	0	225	34	25	18	21	1.96
1562242--1562397	63	2.5	62	87	4	197	35	23	18	21	1.95
1562305--1562427	42	2.9	42	92	0	210	36	21	19	22	1.95
1568967--1569022	2	28.5	2	78	3	60	0	60	0	39	0.97
1568971--1569022	6	8.8	6	91	4	70	0	61	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573034--1573378	172	2.0	172	100	0	690	35	16	24	23	1.94
1574720--1574782	31	2.0	31	96	0	117	31	19	11	38	1.86
1576316--1576340	11	2.3	11	100	0	50	40	8	8	44	1.63
1578363--1578438	38	2.0	37	82	7	91	48	2	1	47	1.24
1578666--1578702	15	2.5	15	90	0	56	32	13	18	35	1.90
1579864--1579976	52	2.2	51	80	4	136	28	36	7	27	1.85
1600842--1600991	71	2.1	71	97	0	282	36	12	21	30	1.90
1601372--1601402	10	3.1	10	100	0	62	29	32	0	38	1.57
1601443--1601483	18	2.3	18	91	4	66	29	4	2	63	1.28
1604913--1605023	51	2.2	51	80	0	123	23	29	29	17	1.97
1607528--1607600	17	4.4	17	75	13	64	23	6	0	69	1.12
1612108--1612187	11	7.4	10	77	12	54	78	3	2	15	0.99
1612145--1612187	5	8.2	5	80	19	52	79	2	0	18	0.85
1612108--1612182	6	12.5	6	73	24	52	78	4	2	14	1.00
1612117--1612187	11	6.4	11	78	12	74	78	4	2	14	1.01
1613705--1613964	59	4.4	59	82	0	315	32	14	26	26	1.95
1613975--1614508	74	7.0	75	81	6	526	36	13	16	33	1.87
1613975--1614157	36	5.0	36	77	5	204	40	13	14	31	1.85
1613984--1614426	39	11.6	39	82	2	465	36	13	16	33	1.88
1613984--1614461	78	6.3	76	84	4	529	37	13	16	32	1.88
1615583--1615626	2	22.0	2	100	0	88	50	0	0	50	1.00
1617307--1617354	23	2.0	26	84	12	66	58	4	16	20	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621081--1621202	23	5.3	23	92	0	208	18	27	26	27	1.98
1626363--1626394	14	2.4	13	94	5	55	21	0	0	78	0.76
1628828--1628901	23	3.3	22	81	10	89	25	17	25	31	1.97
1630136--1630169	14	2.5	13	86	9	50	11	14	0	73	1.10
1640682--1640724	17	2.5	17	82	14	61	30	13	23	32	1.93
1642488--1642662	90	2.0	89	90	1	278	45	5	12	37	1.63
1648125--1648165	21	2.0	21	85	0	55	29	12	19	39	1.88
1648214--1648255	21	2.0	21	95	0	75	16	23	26	33	1.96
1672606--1672709	41	2.5	41	84	3	138	32	11	19	36	1.87
1675271--1675313	22	1.9	23	90	4	70	34	4	27	32	1.78
1679593--1679681	26	3.4	26	98	1	169	33	14	8	42	1.77
1679872--1679950	42	1.9	41	86	2	113	39	18	11	30	1.86
1680000--1680093	43	2.1	45	82	3	111	31	23	12	31	1.92
1682190--1682370	92	1.9	93	90	5	285	39	6	7	47	1.56
1686525--1686558	18	1.9	18	88	5	52	29	20	11	38	1.88
1688026--1688063	19	2.0	20	89	5	60	26	0	10	63	1.27
1688891--1688930	21	1.9	21	85	10	55	25	5	7	62	1.42
1692494--1692549	20	2.8	20	97	0	103	32	10	17	39	1.84
1692311--1693082	182	4.0	200	86	7	961	41	13	17	27	1.87
1695524--1695650	66	1.9	66	80	3	148	32	5	39	22	1.77
1696133--1696205	36	2.0	36	100	0	146	43	2	17	35	1.64
1696890--1696931	19	2.2	19	86	0	57	11	19	30	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1696890--1696946	10	6.0	9	76	11	51	14	24	29	31	1.94
1696952--1696989	17	2.2	17	100	0	76	18	44	23	13	1.85
1696980--1697010	13	2.3	14	94	5	55	16	25	29	29	1.96
1704254--1704302	19	2.5	19	86	3	62	20	42	24	12	1.86
1707067--1707115	19	2.6	19	96	0	89	32	2	10	55	1.45
1707568--1708171	201	3.0	198	83	6	743	37	15	15	31	1.89
1708095--1708254	73	2.2	72	81	9	191	31	16	18	33	1.93
1707897--1708444	273	2.0	274	85	5	752	35	15	16	32	1.90
1708216--1708655	200	2.2	200	86	2	580	35	15	16	32	1.90
1708586--1708735	72	2.1	73	82	3	178	32	16	18	32	1.94
1707700--1709145	473	3.1	472	91	2	2328	35	15	16	33	1.90
1708416--1708929	273	1.9	273	86	1	744	34	15	16	32	1.91
1709111--1709159	20	2.4	21	86	3	64	28	12	16	42	1.84
1708648--1709128	200	2.4	201	86	4	557	34	14	16	33	1.89
1708911--1709349	220	2.0	222	86	2	616	34	14	17	34	1.89
1708711--1709494	421	1.9	421	86	2	1144	35	14	16	33	1.89
1709704--1709741	18	2.1	18	90	0	58	10	5	13	71	1.30
1712270--1712324	24	2.3	25	81	9	69	32	5	14	47	1.67
1712289--1712325	18	2.1	18	89	0	56	32	5	10	51	1.60
1712281--1712333	24	2.2	24	86	0	70	35	3	13	47	1.61
1713091--1713134	21	2.0	21	82	4	52	31	13	6	47	1.69
1712823--1713526	199	3.5	197	84	3	894	38	13	14	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1717763--1717813	21	2.4	21	93	0	84	33	11	17	37	1.86
1717584--1718013	221	1.9	221	84	2	578	38	14	16	30	1.88
1717805--1718304	200	2.5	199	82	6	611	39	13	15	32	1.86
1718306--1718467	87	1.9	87	92	5	274	32	13	10	43	1.78
1728136--1728652	59	8.7	59	91	0	802	31	21	14	32	1.93
1729006--1729203	92	2.1	90	83	9	240	29	23	13	33	1.93
1735107--1735255	7	20.4	7	75	20	94	82	0	12	4	0.84
1735099--1735257	27	6.1	25	73	17	119	82	1	11	4	0.87
1735107--1735257	33	4.7	31	74	20	114	82	0	12	3	0.83
1735107--1735254	11	11.2	13	70	21	71	82	0	12	4	0.85
1735107--1735254	52	3.1	49	80	10	137	82	0	12	4	0.85
1735134--1735255	38	3.1	38	81	7	138	83	0	12	3	0.81
1735146--1735255	44	2.5	45	85	4	136	85	0	10	2	0.75
1735146--1735257	1	112.0	1	71	0	80	85	0	10	2	0.74
1739294--1739351	25	2.2	27	75	9	66	62	1	5	31	1.27
1742743--1742785	22	2.0	22	95	0	77	41	6	4	46	1.51
1742898--1742980	31	2.6	33	74	11	82	48	12	4	34	1.62
1743623--1743679	28	2.0	29	89	6	89	40	7	15	36	1.75
1745234--1745281	24	2.0	24	91	0	78	31	12	12	43	1.80
1751085--1751350	59	4.5	59	91	1	399	33	19	13	33	1.91
1751766--1751818	22	2.5	21	82	8	72	28	26	13	32	1.93
1753645--1753725	3	26.7	3	84	2	90	38	4	0	56	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1755196--1755281	30	2.9	30	79	8	95	22	12	4	60	1.51
1757226--1757279	3	18.0	3	100	0	108	66	0	0	33	0.92
1760090--1760188	42	2.3	43	86	6	132	35	22	20	22	1.96
1760174--1760334	41	3.9	41	88	0	205	35	14	18	32	1.90
1761792--1761924	41	3.2	41	74	12	128	31	15	20	33	1.93
1761897--1762048	42	3.6	42	83	3	182	24	17	16	41	1.89
1770570--1770710	44	3.2	44	84	5	180	28	23	17	31	1.97
1770689--1770734	24	1.9	24	90	0	74	28	23	17	30	1.97
1770709--1770850	45	3.2	45	86	5	207	27	23	15	33	1.95
1770783--1770919	45	3.1	45	80	8	122	29	24	15	31	1.95

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   30   31   32   
          33