genome.fa.s9462.2.7.7.80.10.50.1000.9.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  9  of  91  ( 10815 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)
1648646--1649711	336	3.2	337	93	1	1770	27	19	14	38	1.91
1648646--1649711	113	9.5	113	93	2	1733	27	19	14	38	1.91
1650150--1650223	22	3.4	22	90	0	112	36	14	13	35	1.86
1652886--1653511	83	7.6	83	97	1	1127	37	22	13	26	1.91
1657464--1657513	16	3.3	15	76	13	50	24	4	0	72	1.02
1657471--1657513	22	2.0	22	86	4	61	23	4	0	72	1.04
1661210--1661247	20	1.9	20	89	10	60	31	2	21	44	1.66
1668338--1668393	17	3.2	18	76	16	64	39	0	0	60	0.97
1668843--1668899	29	2.0	29	96	0	105	36	0	19	43	1.51
1668967--1669008	2	21.0	2	100	0	84	50	0	0	50	1.00
1669311--1669356	5	9.2	5	100	0	92	19	39	0	41	1.52
1673053--1673112	30	2.0	30	84	9	79	38	8	23	30	1.84
1673415--1673490	32	2.4	34	78	14	81	32	0	17	50	1.46
1680760--1680804	21	2.1	21	87	0	63	26	28	11	33	1.91
1682030--1682066	15	2.6	14	87	8	56	56	8	10	24	1.60
1682630--1682697	20	3.3	20	75	15	66	38	14	19	27	1.91
1685107--1685139	14	2.3	15	89	5	50	39	27	0	33	1.57
1685292--1685345	23	2.3	23	81	6	74	27	22	29	20	1.98
1690495--1690527	14	2.3	15	89	5	50	39	27	0	33	1.57
1690682--1690734	23	2.3	22	81	12	63	24	28	30	16	1.97
1693180--1693231	19	2.6	21	90	6	81	46	5	13	34	1.67
1697110--1697161	19	2.6	21	90	6	81	46	5	13	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1701571--1701603	2	16.5	2	100	0	66	51	0	0	48	1.00
1708245--1708272	13	2.2	13	100	0	56	25	21	0	53	1.46
1712321--1712367	22	2.1	23	84	4	60	17	25	2	55	1.53
1712358--1712408	24	2.1	24	92	0	84	11	27	1	58	1.44
1713676--1713707	16	2.0	16	93	0	55	34	6	0	59	1.23
1714178--1714228	21	2.5	20	87	9	68	82	3	11	1	0.89
1714178--1714234	21	2.8	21	84	7	64	80	3	14	1	0.92
1718080--1718129	24	2.1	24	92	0	82	12	28	2	58	1.45
1724605--1724654	3	16.3	3	84	12	66	30	2	0	68	1.01
1724605--1724673	15	4.5	15	73	18	54	26	1	0	72	0.93
1725003--1725036	15	2.3	15	89	0	50	14	38	5	41	1.70
1726959--1727079	3	39.7	3	74	14	72	60	1	4	33	1.26
1730394--1730418	10	2.5	10	100	0	50	8	8	0	84	0.79
1730390--1730427	18	2.1	18	85	9	51	7	7	0	84	0.79
1740942--1740990	20	2.5	20	76	6	55	75	6	4	14	1.14
1741125--1741166	2	21.5	2	90	4	68	52	2	0	45	1.13
1741200--1741305	6	17.8	6	81	13	89	66	0	2	30	1.13
1741200--1741305	9	11.9	9	74	16	89	66	0	2	30	1.13
1741339--1741374	18	1.9	19	94	5	65	80	0	0	19	0.71
1743247--1743287	2	21.0	2	95	5	75	48	0	0	51	1.00
1743950--1744048	31	3.2	31	95	0	180	58	4	15	22	1.53
1745699--1745748	22	2.4	21	90	9	77	24	4	0	72	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749540--1749587	20	2.5	20	83	10	55	35	14	0	50	1.44
1753019--1753184	55	3.0	55	84	3	219	33	13	19	33	1.90
1753026--1753196	54	3.1	54	84	4	184	32	14	19	33	1.91
1753421--1753520	49	2.0	49	86	0	137	32	14	25	29	1.94
1758727--1758772	22	2.1	22	83	0	56	36	15	26	21	1.93
1760231--1760293	32	2.0	32	83	0	81	53	30	11	4	1.56
1760231--1760332	16	6.5	16	73	10	68	50	30	13	4	1.62
1760266--1760328	15	4.1	15	75	17	58	47	30	17	4	1.68
1760324--1760413	43	2.1	43	97	0	171	31	36	11	21	1.88
1760945--1760998	26	2.1	26	82	0	63	37	25	12	24	1.91
1761237--1761275	15	2.4	16	83	8	53	28	10	2	58	1.44
1763391--1763441	20	2.5	20	87	6	68	31	11	0	56	1.35
1763923--1763960	3	12.7	3	83	10	51	2	31	0	65	1.06
1764383--1764416	3	11.7	3	93	6	61	32	0	0	67	0.91
1772567--1772605	2	19.5	2	100	0	78	48	0	0	51	1.00
1776139--1776176	11	3.2	12	85	11	51	76	0	23	0	0.79
1777201--1777917	133	5.4	133	81	3	751	31	22	16	29	1.96
1779551--1779671	62	2.0	62	82	9	149	19	8	11	61	1.55
1780113--1780478	131	2.8	131	84	0	473	32	9	16	41	1.80
1784626--1784658	17	1.9	17	100	0	66	33	0	18	48	1.48
1784826--1784868	2	22.0	2	90	4	70	48	2	0	48	1.14
1788749--1788804	25	2.2	25	90	3	85	48	8	8	33	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1789524--1789582	14	4.3	14	73	2	57	28	0	1	69	0.98
1791354--1791434	39	2.1	39	97	0	153	43	12	16	28	1.84
1798955--1799173	105	2.1	104	82	2	260	42	13	10	34	1.77
1799788--1799820	15	2.2	15	89	10	50	69	12	0	18	1.18
1804356--1804408	22	2.4	21	75	9	52	35	13	3	47	1.61
1807022--1807046	2	12.5	2	100	0	50	52	48	0	0	1.00
1807494--1807555	24	2.7	23	87	2	88	24	25	27	22	2.00
1807494--1807562	24	2.9	23	78	8	59	27	24	26	21	1.99
1808149--1808201	22	2.4	21	75	9	52	35	15	5	43	1.70
1810819--1810843	2	12.5	2	100	0	50	52	48	0	0	1.00
1811287--1811348	24	2.7	23	87	2	88	24	25	27	22	2.00
1811287--1811355	24	2.9	23	78	8	59	27	24	26	21	1.99
1811943--1811995	22	2.4	21	75	9	52	35	15	5	43	1.70
1814605--1814659	2	27.5	2	96	0	101	52	47	0	0	1.00
1814659--1814691	2	16.5	2	100	0	66	51	0	0	48	1.00
1814980--1815011	2	16.0	2	100	0	64	50	0	0	50	1.00
1815687--1815739	22	2.4	21	75	9	52	35	13	3	47	1.61
1817859--1817898	18	2.4	17	84	15	57	60	0	30	10	1.30
1821828--1821873	20	2.2	20	84	3	56	34	19	17	28	1.94
1828293--1828317	2	12.5	2	100	0	50	52	0	0	48	1.00
1828377--1828685	85	3.6	85	86	2	390	33	17	19	29	1.95
1830701--1831173	54	8.8	54	87	3	537	32	21	17	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1832750--1832789	12	3.2	12	86	10	53	57	0	7	35	1.27
1832751--1832791	14	3.2	13	89	6	57	58	0	7	34	1.26
1843762--1843830	4	18.0	4	75	19	67	68	0	1	30	0.99
1843762--1843830	7	9.6	7	83	16	88	68	0	1	30	0.99
1843753--1843826	30	2.4	31	86	10	107	68	0	1	29	0.97
1843750--1843841	26	3.5	26	80	14	93	69	1	1	28	1.02
1843782--1843833	19	2.9	17	83	13	68	73	0	0	26	0.84
1843873--1843953	41	2.0	42	95	2	146	43	3	6	46	1.46
1843931--1843977	23	2.0	24	95	4	87	40	8	4	46	1.54
1843943--1844203	37	6.9	37	82	8	262	39	11	4	44	1.62
1843945--1844204	38	6.9	38	81	11	259	39	11	4	44	1.61
1847019--1847070	17	3.2	17	75	10	54	50	13	3	32	1.60
1849601--1849657	29	1.9	30	85	3	80	22	5	10	61	1.48
1856766--1856908	7	20.4	7	71	0	88	43	32	2	21	1.67
1858346--1858406	11	5.3	11	75	11	59	29	13	24	32	1.93
1858338--1858406	23	3.0	23	78	4	84	30	14	24	30	1.95
1858372--1858410	11	3.5	11	79	6	51	30	15	25	28	1.96
1858964--1859006	23	1.9	22	85	4	59	37	4	9	48	1.56
1859746--1859785	2	20.0	2	100	0	80	50	0	0	50	1.00
1869540--1869582	2	21.5	2	100	0	86	51	0	0	48	1.00
1872327--1872362	13	2.8	13	95	0	63	33	27	13	25	1.94
1873713--1873829	51	2.3	51	87	1	162	35	2	10	51	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874238--1874272	15	2.3	15	90	0	52	20	22	2	54	1.58
1877976--1878086	51	2.2	50	82	4	127	42	6	5	45	1.52
1877995--1878093	51	1.9	51	87	0	144	44	5	5	45	1.47
1883803--1884851	135	7.7	135	85	3	1253	28	20	16	35	1.94
1883811--1884851	269	3.8	269	85	4	1268	27	20	16	35	1.94
1883803--1884854	404	2.6	406	84	3	1324	28	20	16	35	1.94
1891550--1893103	641	2.4	639	80	4	1569	27	21	23	27	1.99
1894486--1894532	22	2.0	23	84	8	60	14	29	19	36	1.92
1896219--1896243	12	2.1	12	100	0	50	28	16	32	24	1.96
1915303--1915345	20	2.2	20	86	0	59	37	9	18	34	1.83

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91