genome.fa.s9175.2.7.7.80.10.50.1000.10.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  10  of  51  ( 6037 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)
1906603--1906652	25	2.0	25	88	3	75	34	12	28	26	1.92
1909715--1910132	208	2.0	208	94	2	734	34	19	12	32	1.90
1910429--1910467	13	3.0	13	96	0	69	28	15	25	30	1.96
1912941--1913015	36	2.1	36	97	0	141	42	14	10	32	1.80
1917518--1917581	26	2.5	25	90	7	94	32	12	4	50	1.61
1920309--1920349	21	2.0	21	90	9	66	26	21	12	39	1.89
1922601--1922740	21	6.8	20	73	5	109	37	22	17	22	1.94
1922601--1922759	21	7.8	20	72	7	106	37	23	17	20	1.94
1922623--1922734	41	2.7	41	91	6	174	38	21	16	23	1.93
1922707--1922900	20	9.6	20	81	5	221	35	25	19	19	1.95
1922707--1922900	60	3.2	60	83	0	253	35	25	19	19	1.95
1923279--1923349	33	2.2	33	89	0	106	11	23	16	47	1.79
1923429--1923534	21	5.6	20	70	16	91	45	18	25	10	1.81
1923427--1923505	21	3.8	21	79	12	92	45	16	26	11	1.81
1923422--1923538	41	3.1	38	79	14	136	46	17	26	10	1.80
1923492--1923545	14	3.5	14	73	22	54	42	24	25	7	1.80
1923481--1923550	33	2.1	33	97	0	131	47	20	25	7	1.75
1923487--1923561	33	2.3	33	92	0	123	46	24	22	6	1.75
1923556--1923672	14	7.1	17	68	24	81	11	24	21	42	1.85
1923562--1923675	33	3.5	33	93	1	203	9	24	21	44	1.82
1927079--1927114	14	2.6	14	95	0	63	33	0	22	44	1.53
1927221--1927320	19	5.5	19	84	12	147	45	17	23	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1927221--1927337	53	2.2	53	95	1	209	43	17	24	14	1.86
1927327--1927494	19	9.6	19	76	18	177	14	23	17	44	1.86
1927333--1927494	33	4.7	33	74	16	159	14	22	17	45	1.85
1927327--1927494	52	3.2	52	97	0	309	14	23	17	44	1.86
1927553--1927650	19	5.4	19	84	13	143	45	17	22	14	1.84
1927553--1927669	53	2.2	53	98	1	227	44	17	23	13	1.85
1929981--1930005	12	2.1	12	100	0	50	0	28	0	72	0.86
1930179--1930225	24	2.0	24	87	8	69	38	21	14	25	1.92
1930904--1931153	20	12.5	20	86	1	268	20	17	24	37	1.93
1931140--1931222	21	4.0	21	73	6	78	25	16	24	33	1.96
1931120--1931218	42	2.4	43	77	11	100	21	18	23	37	1.94
1939951--1939984	16	2.1	16	100	0	68	17	26	20	35	1.95
1940628--1940862	43	5.4	43	86	1	256	27	17	26	28	1.98
1940800--1940905	44	2.5	42	80	7	97	24	16	24	33	1.96
1941305--1941361	21	2.7	21	100	0	114	0	36	22	40	1.55
1941305--1941387	42	2.0	42	82	0	103	2	36	20	40	1.66
1941369--1941424	21	2.7	21	85	0	85	1	41	19	37	1.62
1944790--1944880	46	2.0	46	95	0	164	48	16	24	10	1.78
1945791--1945900	41	2.7	40	77	16	118	34	23	18	23	1.96
1946162--1946349	57	3.3	57	99	0	367	51	13	5	29	1.64
1947356--1947449	41	2.3	41	83	10	113	26	20	18	35	1.95
1949454--1949490	18	2.1	18	94	0	65	27	29	24	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1953203--1953262	23	2.6	23	78	0	75	10	25	40	25	1.86
1954068--1954243	66	2.7	65	81	6	196	48	14	9	27	1.75
1954014--1954243	66	3.5	65	78	10	188	45	14	11	28	1.79
1954068--1954267	66	3.1	65	78	9	151	47	14	10	28	1.77
1960360--1960430	30	2.4	29	90	4	106	56	7	15	21	1.63
1975183--1975209	14	1.9	14	100	0	54	48	14	22	14	1.81
1978733--1978764	14	2.3	14	94	0	55	18	0	31	50	1.48
1979071--1979112	21	2.0	22	85	4	59	16	26	19	38	1.92
1979954--1979997	22	2.0	23	86	4	63	31	0	2	65	1.05
1979994--1980034	20	2.2	20	86	8	59	31	2	2	63	1.20
1980185--1980230	12	3.7	12	82	8	56	15	8	0	76	1.02
1980250--1980302	3	17.7	3	100	0	106	33	0	0	66	0.92
1980332--1980446	34	3.5	31	77	14	108	15	8	0	75	1.03
1980329--1980470	8	16.0	9	68	27	58	14	9	0	74	1.10
1980374--1980444	4	17.8	4	73	16	51	18	5	0	76	0.98
1995841--1995899	30	2.0	29	83	3	73	35	8	22	33	1.84
1996129--1996196	23	3.0	23	84	0	91	17	22	26	33	1.96
1997119--1997167	3	15.3	3	83	12	62	32	0	2	65	1.04
1997114--1997164	17	3.2	17	86	10	72	33	0	1	64	1.05
1997119--1997171	17	3.2	17	82	15	67	32	0	1	66	1.03
1997227--1997297	12	5.9	12	73	20	60	22	4	1	71	1.11
1997226--1997312	12	6.9	13	74	15	51	21	4	1	72	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1997455--1997573	9	12.4	9	70	22	50	15	13	0	69	1.23
1997543--1997588	15	2.9	15	90	6	65	13	8	4	73	1.21
1998232--1998286	10	5.1	10	75	16	56	9	10	18	61	1.54
1998234--1998280	24	2.0	24	91	0	76	8	12	17	61	1.55
1998351--1998383	16	2.1	16	94	0	57	6	12	27	54	1.60
2000113--2000143	16	1.9	16	100	0	62	58	22	12	6	1.58
2000208--2000255	16	3.0	16	87	0	69	60	20	8	10	1.55
2001331--2001381	24	2.1	24	85	0	66	52	23	11	11	1.70
2001353--2001379	14	1.9	14	100	0	54	44	29	14	11	1.80
2004279--2004609	36	9.1	36	87	7	433	44	4	6	44	1.48
2004277--2004625	110	3.2	107	84	7	456	44	4	6	45	1.47
2004277--2004610	73	4.6	74	88	4	468	44	4	6	44	1.48
2004638--2004689	24	2.2	23	86	10	70	26	0	1	71	0.97
2005764--2005832	4	17.8	4	78	14	65	17	1	2	78	0.95
2005764--2005841	8	8.9	9	84	13	76	17	1	2	78	0.94
2005763--2005840	12	6.9	12	77	15	53	17	1	2	78	0.94
2006062--2006088	6	4.5	6	100	0	54	44	0	0	55	0.99
2007146--2007190	23	2.0	23	86	0	63	26	28	24	20	1.99
2007169--2007472	149	2.0	149	99	0	599	36	20	15	27	1.93
2014077--2014121	23	2.0	23	86	0	63	26	28	24	20	1.99
2014100--2014401	149	2.0	147	98	1	577	36	20	15	27	1.93
2014877--2014913	19	1.9	19	88	0	56	10	29	35	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2017186--2017244	29	2.0	29	90	0	91	50	6	18	23	1.70
2017827--2017865	19	2.1	19	100	0	78	15	48	0	35	1.45
2025990--2026064	26	2.8	26	80	6	71	53	1	1	44	1.17
2026004--2026070	27	2.7	24	72	14	64	52	0	2	44	1.16
2027763--2027815	20	2.6	21	87	3	72	30	20	22	26	1.98
2027743--2027840	41	2.4	42	84	5	128	34	19	19	26	1.96
2027743--2027816	21	3.6	20	83	3	85	32	20	20	27	1.97
2027763--2027837	21	3.6	21	77	12	75	32	21	20	26	1.97
2028981--2029069	32	2.8	32	87	0	133	40	19	14	25	1.89
2030901--2030972	30	2.4	30	83	2	92	31	26	20	20	1.98
2032050--2032107	20	2.6	23	86	10	77	25	20	22	31	1.98
2032095--2032231	64	2.2	63	80	7	152	25	22	17	34	1.96
2035146--2035231	31	2.8	31	89	1	129	34	25	19	19	1.96
2035159--2035254	31	3.1	31	87	3	104	36	22	18	21	1.95
2035487--2035513	7	3.9	7	100	0	54	55	14	0	29	1.40
2036174--2036231	20	2.6	22	86	10	75	25	22	22	29	1.99
2036222--2036341	62	1.9	62	85	6	163	26	23	15	35	1.94
2041305--2041346	11	3.9	11	93	6	77	35	0	19	45	1.50
2041309--2041349	10	4.0	10	93	3	64	34	0	19	46	1.50
2041412--2041889	138	3.4	138	88	7	758	21	22	23	32	1.98
2041510--2041889	152	2.6	152	91	5	608	19	23	25	32	1.98
2042015--2042142	63	2.0	63	90	3	204	40	0	21	37	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2042077--2042120	23	2.0	23	86	4	63	45	0	15	38	1.47
2042036--2042114	40	2.0	41	82	7	99	39	1	20	39	1.61
2042088--2042133	23	2.0	23	83	8	58	50	0	17	32	1.47
2042346--2042418	34	2.1	34	89	0	110	36	5	6	50	1.52
2044540--2044606	28	2.3	30	77	15	77	56	2	1	38	1.24
2053815--2053859	23	1.9	24	86	13	67	6	20	0	73	1.05
2054533--2054567	17	2.1	17	89	10	54	60	0	5	34	1.21
2070174--2070460	37	7.8	36	81	11	300	42	4	8	44	1.53
2070466--2070493	3	9.3	3	100	0	56	32	0	0	67	0.91
2070501--2070554	21	2.6	20	83	13	65	16	1	3	77	1.00

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