genome.fa.s9634.2.7.7.80.10.50.1000.8.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  8  of  78  ( 9351 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)
1634936--1635022	20	4.3	21	76	15	94	37	9	1	51	1.41
1635049--1635089	20	2.0	20	86	9	57	41	17	2	39	1.62
1638279--1638317	2	19.5	2	100	0	78	48	0	0	51	1.00
1638306--1638783	234	2.0	234	85	4	644	39	14	15	30	1.87
1638773--1638798	2	13.0	2	100	0	52	50	0	0	50	1.00
1643029--1643119	24	3.9	24	72	22	68	70	1	8	19	1.20
1644485--1644551	3	22.3	3	77	17	68	67	1	1	29	1.09
1644470--1644551	18	4.4	18	79	16	87	67	1	2	29	1.11
1644468--1644551	36	2.4	33	83	9	96	67	1	2	28	1.10
1644488--1644540	23	2.3	23	90	6	81	67	1	1	28	1.11
1644608--1644718	37	2.9	39	80	8	120	50	1	2	45	1.26
1644608--1644724	40	3.0	39	80	7	121	51	2	2	43	1.29
1644700--1644724	11	2.3	11	100	0	50	44	8	8	40	1.63
1644602--1644784	36	5.0	36	76	13	140	46	5	2	44	1.40
1644752--1644793	22	1.9	22	95	0	75	45	9	2	42	1.49
1644783--1644827	2	22.5	2	100	0	90	51	0	0	48	1.00
1644752--1644791	20	1.9	21	90	10	64	45	10	2	42	1.51
1645622--1646486	84	10.4	83	81	5	871	23	21	25	29	1.99
1645600--1646486	330	2.7	333	87	2	1243	24	21	25	29	1.99
1645600--1646486	414	2.1	412	85	3	1185	24	21	25	29	1.99
1651435--1651504	24	2.8	26	77	14	67	75	2	5	15	1.11
1652859--1652918	3	20.0	3	74	19	54	66	1	0	31	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1652840--1652913	24	2.9	25	78	15	80	67	1	1	29	1.07
1652856--1652957	39	2.6	40	79	13	97	61	0	0	37	1.03
1652933--1653131	34	6.0	34	72	12	128	46	4	2	46	1.34
1653101--1653143	22	2.0	22	95	4	79	46	4	0	48	1.22
1652933--1653131	33	6.0	33	73	14	140	46	4	2	46	1.34
1653064--1653185	63	2.0	58	83	13	149	45	8	2	44	1.47
1657073--1657107	2	17.5	2	100	0	70	48	0	0	51	1.00
1657211--1657344	70	1.9	70	96	0	250	28	20	23	27	1.99
1659241--1659306	21	3.0	24	70	20	63	30	12	28	28	1.93
1659315--1659436	53	2.3	52	84	10	151	29	17	22	31	1.96
1663327--1663380	21	2.6	21	78	0	63	37	25	14	22	1.93
1677217--1677699	181	2.7	181	78	7	439	42	8	10	38	1.71
1677815--1678074	139	1.9	134	88	3	385	37	8	7	46	1.62
1678384--1678445	22	2.7	23	72	20	58	69	1	4	24	1.17
1681774--1681813	21	1.9	21	94	0	71	60	2	0	37	1.11
1691624--1691657	16	2.1	16	88	0	50	61	2	8	26	1.40
1692909--1693053	73	2.0	73	94	2	256	31	20	19	29	1.97
1697416--1697504	36	2.5	36	92	1	144	38	15	16	29	1.90
1700805--1701138	169	2.0	169	86	1	463	25	18	33	22	1.96
1703010--1703049	21	1.9	21	94	0	71	32	30	15	22	1.94
1703075--1703113	19	2.1	19	95	0	69	20	38	15	25	1.92
1703010--1703239	64	3.5	64	79	10	204	31	26	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1703191--1703239	19	2.6	19	84	9	57	24	30	18	26	1.98
1714571--1714613	21	2.2	20	80	12	54	39	4	0	55	1.20
1715608--1715646	20	2.0	20	94	0	69	25	12	43	17	1.85
1715680--1715793	31	3.7	30	75	16	108	11	21	30	36	1.88
1718457--1718523	20	3.3	20	67	19	57	47	4	8	38	1.55
1718434--1718543	41	2.6	42	88	2	159	48	5	6	40	1.52
1718494--1718718	28	8.5	28	74	19	162	49	4	4	40	1.44
1718494--1718718	57	4.3	56	70	21	164	49	4	4	40	1.44
1718546--1718757	40	5.2	40	73	20	165	49	5	4	40	1.46
1718435--1718727	14	21.0	14	67	13	133	49	5	4	40	1.47
1718588--1718757	60	2.8	60	79	15	199	49	5	4	40	1.46
1718666--1718713	23	2.1	23	100	0	96	50	4	4	41	1.41
1718677--1718757	37	2.2	36	95	2	144	49	6	3	40	1.45
1718589--1718754	85	1.9	88	91	6	275	49	5	4	40	1.45
1721899--1721981	32	2.6	32	90	3	132	36	32	25	6	1.80
1721962--1722068	45	2.3	46	93	3	180	39	23	19	17	1.92
1723519--1723569	3	17.7	3	82	15	63	33	0	0	66	0.92
1728397--1728721	150	2.2	150	92	0	533	34	14	15	35	1.88
1728547--1729290	229	3.2	232	87	3	1075	30	16	17	34	1.92
1728547--1729290	235	3.2	233	87	3	1063	30	16	17	34	1.92
1729161--1729268	42	2.6	41	82	1	135	25	24	20	29	1.99
1729525--1729555	3	10.0	3	93	6	53	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730442--1730480	6	6.5	6	85	11	53	82	2	12	2	0.89
1730447--1730483	18	2.1	17	95	5	65	86	2	10	0	0.67
1739897--1739939	3	15.0	3	81	18	56	67	0	0	32	0.91
1739896--1739936	13	3.2	13	82	10	57	65	0	0	34	0.93
1740413--1740519	41	2.6	41	74	14	96	32	18	26	22	1.97
1740165--1741496	221	5.9	226	85	7	1592	35	17	16	31	1.92
1741090--1741190	42	2.4	41	83	3	139	31	22	22	22	1.98
1740165--1741496	448	3.0	451	84	6	1766	35	17	16	31	1.92
1746748--1746776	9	3.3	9	90	9	51	10	48	0	41	1.37
1747419--1747522	55	1.9	55	89	0	163	24	21	10	44	1.83
1747792--1747832	17	2.4	17	91	0	64	36	31	7	24	1.83
1750993--1751075	3	27.7	3	97	0	157	66	1	0	32	1.00
1753877--1753904	8	3.5	8	100	0	56	64	0	0	35	0.94
1753877--1753913	16	2.3	16	90	0	56	62	2	2	32	1.23
1754894--1754951	3	20.0	3	77	19	61	34	0	0	65	0.93
1756456--1756496	13	3.3	13	90	6	59	21	0	0	78	0.76
1756520--1756786	142	1.8	142	84	6	356	40	6	6	46	1.56
1758613--1758676	30	2.1	30	94	0	110	39	17	26	17	1.91
1763827--1763980	75	2.1	75	83	2	193	32	16	18	32	1.93
1766060--1766259	76	2.7	75	88	3	278	25	19	21	33	1.97
1766304--1766716	122	3.5	115	82	9	419	41	13	19	25	1.88
1766414--1766716	122	2.5	122	91	1	464	42	14	19	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1767099--1767173	3	25.3	3	81	12	93	32	0	2	65	1.07
1768727--1768979	137	1.8	138	82	5	325	38	6	7	46	1.59
1781419--1781449	15	2.1	15	93	0	53	25	19	9	45	1.81
1788765--1788803	20	2.0	20	100	0	78	66	0	20	12	1.24
1788763--1788814	20	2.4	23	84	9	74	73	0	17	9	1.09
1790329--1790759	113	3.8	113	91	1	652	37	15	19	27	1.92
1791013--1791057	22	2.0	23	91	4	74	24	0	4	71	1.05
1791020--1791094	19	4.0	19	76	6	64	37	0	1	61	1.05
1791023--1791072	22	2.3	22	82	0	64	32	0	2	66	1.03
1791023--1791072	3	18.0	3	80	15	54	32	0	2	66	1.03
1810780--1810809	10	3.0	10	95	0	51	50	6	10	33	1.62
1824927--1825050	29	4.3	27	76	10	97	47	8	6	37	1.61
1824947--1825050	29	3.6	29	81	6	104	46	8	5	39	1.59
1844498--1844588	34	2.6	34	80	3	92	24	43	4	27	1.73
1845730--1845758	13	2.2	13	100	0	58	79	0	0	20	0.74
1847385--1847418	3	11.0	3	93	6	59	64	0	0	35	0.94
1848392--1848446	24	2.2	25	83	6	67	52	0	1	45	1.11
1849811--1849879	3	23.0	3	77	11	70	57	1	0	40	1.07
1849811--1849879	24	3.0	22	93	6	111	57	1	0	40	1.07
1850002--1850856	74	11.5	76	93	4	1426	34	21	21	22	1.97
1850002--1850856	297	2.9	299	93	3	1462	34	21	21	22	1.97
1850002--1850856	150	5.7	151	93	5	1431	34	21	21	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1854240--1854582	114	3.0	114	94	0	578	31	19	14	34	1.92
1856840--1856873	15	2.2	16	89	5	52	0	20	0	79	0.73
1863508--1863573	3	22.0	3	79	11	73	60	1	0	37	1.06
1863497--1863573	24	3.0	25	92	7	120	58	1	0	40	1.06
1863723--1863817	28	3.4	28	78	15	97	45	13	14	26	1.82
1863971--1864070	35	2.8	36	82	10	116	38	13	17	32	1.87
1864226--1864310	28	2.9	29	78	11	77	42	11	14	31	1.81
1864253--1864334	28	3.0	28	77	8	89	41	13	14	30	1.84
1864499--1864759	137	1.9	136	85	6	359	38	9	17	34	1.83
1864673--1864775	36	2.7	38	77	10	104	38	12	16	32	1.86

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78