genome.fa.s7999.2.7.7.80.10.50.1000.34.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  34  of  50  ( 5918 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)
8289443--8289568	60	2.1	60	95	0	225	19	18	19	42	1.90
8289572--8289617	21	2.2	21	92	0	74	39	17	26	17	1.91
8299731--8299755	2	12.5	2	100	0	50	48	0	0	52	1.00
8301097--8301170	37	2.0	37	97	0	139	50	10	22	16	1.76
8301246--8301651	203	2.0	203	100	0	812	37	22	17	22	1.94
8303846--8303892	18	2.6	19	80	10	53	61	0	10	27	1.29
8304489--8304554	28	2.3	28	97	2	123	69	3	16	10	1.29
8305648--8305719	24	3.0	24	85	0	99	52	16	9	20	1.72
8307521--8308516	249	4.0	249	99	0	1938	36	18	9	35	1.83
8324044--8324086	18	2.4	18	88	0	68	69	2	11	16	1.28
8324700--8324737	20	1.9	20	88	0	58	65	5	10	18	1.41
8324858--8324890	13	2.6	13	90	4	50	42	6	6	45	1.53
8325728--8325771	9	5.0	9	83	5	63	9	15	0	75	1.05
8325757--8325803	24	2.0	24	86	0	67	2	8	8	80	0.97
8325775--8325823	19	2.6	19	81	15	66	0	10	8	81	0.87
8328312--8328471	42	3.9	42	85	4	218	30	18	20	30	1.97
8338203--8338280	17	4.0	21	71	25	64	65	2	0	32	1.06
8338220--8338253	9	3.9	9	84	7	52	61	2	0	35	1.11
8338210--8338254	17	2.7	17	93	3	74	62	4	0	33	1.15
8344382--8344420	16	2.4	17	87	8	55	38	0	0	61	0.96
8344382--8344444	19	3.4	18	80	8	65	34	1	0	63	1.04
8345294--8345332	20	2.0	20	85	10	53	46	2	5	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8346797--8346829	17	1.9	17	93	0	57	42	0	18	39	1.50
8349130--8349171	21	2.0	21	95	0	75	26	28	21	23	1.99
8350774--8350821	19	2.5	20	82	3	62	29	12	6	52	1.63
8352005--8352046	21	2.0	21	90	0	66	28	28	21	21	1.99
8352158--8352229	20	3.9	19	68	25	64	16	26	36	20	1.94
8354380--8354473	46	2.0	46	95	0	170	27	12	24	35	1.92
8354965--8355088	62	2.0	62	91	0	203	41	13	18	25	1.87
8360011--8360077	32	2.1	32	91	0	107	43	11	10	34	1.76
8360511--8360573	27	2.3	27	94	0	108	39	15	17	26	1.90
8367441--8367542	53	1.9	53	91	0	168	29	15	25	29	1.96
8368856--8369017	63	2.6	63	81	6	159	35	21	17	25	1.95
8375832--8375884	19	2.8	19	100	0	106	30	22	26	20	1.98
8376592--8376636	23	2.0	23	95	0	81	20	24	26	28	1.99
8376600--8376651	23	2.3	23	82	0	59	19	21	26	32	1.97
8378971--8379046	27	2.7	28	83	6	91	56	7	11	23	1.61
8378999--8379181	29	6.4	29	76	6	167	50	9	4	34	1.56
8379142--8379211	22	3.3	21	78	13	90	55	8	2	32	1.45
8379148--8379212	19	3.3	19	77	12	76	56	9	3	30	1.46
8379142--8379222	41	2.0	41	95	0	144	56	7	2	33	1.40
8379183--8379280	29	3.4	29	91	0	151	53	7	4	35	1.48
8382004--8383139	6	202.5	6	83	15	1416	66	0	0	33	0.94
8381960--8383139	32	38.2	31	80	17	1144	66	0	0	33	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8382004--8383139	22	50.9	22	83	14	1291	66	0	0	33	0.94
8389238--8389302	24	2.7	23	76	9	67	40	6	15	38	1.72
8389625--8389728	23	4.4	24	76	4	113	24	23	24	28	1.99
8389625--8389749	48	2.6	48	82	7	132	25	22	22	29	1.99
8389669--8389736	24	2.8	24	72	12	68	27	22	22	27	1.99
8395177--8395249	24	3.1	24	92	2	112	19	23	24	32	1.97
8396893--8396934	20	2.1	20	90	0	66	33	9	21	35	1.86
8405422--8405464	20	2.2	20	87	8	61	32	9	20	37	1.85
8407543--8407669	31	4.1	31	78	8	123	31	18	18	30	1.96
8407657--8407728	30	2.4	30	90	0	108	25	20	23	30	1.99
8415474--8415514	2	20.5	2	100	0	82	48	0	0	51	1.00
8422243--8422302	22	2.7	22	81	0	66	26	30	18	25	1.98
8423481--8423533	2	26.5	2	92	0	88	1	0	45	52	1.11
8427780--8427809	2	15.0	2	100	0	60	50	0	0	50	1.00
8432553--8432604	17	3.1	17	88	0	86	48	11	5	34	1.63
8433464--8433525	12	5.3	12	75	14	51	33	0	1	64	1.03
8433537--8433621	38	2.2	37	85	12	109	43	0	1	55	1.07
8433505--8433642	64	2.2	64	94	4	251	43	0	1	55	1.08
8434162--8434221	31	1.9	31	89	0	93	45	8	6	40	1.61
8436851--8436881	14	2.1	15	94	5	55	51	3	6	38	1.44
8440826--8440850	5	5.0	5	100	0	50	80	0	0	20	0.72
8447571--8447756	65	2.9	64	81	8	218	30	24	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8447702--8447750	19	2.6	19	84	9	57	24	28	20	26	1.99
8447521--8447756	129	1.8	130	81	8	302	31	24	18	25	1.98
8453458--8453554	44	2.2	44	87	7	135	26	27	19	25	1.99
8455089--8455132	21	2.1	21	82	0	52	9	43	15	31	1.79
8456886--8456957	18	3.9	20	74	24	61	48	0	2	48	1.16
8458180--8458230	19	2.8	19	74	8	54	47	1	0	50	1.12
8462135--8462191	29	2.0	29	85	0	78	47	1	8	42	1.45
8465488--8465558	35	2.0	35	88	0	106	42	25	0	32	1.55
8470580--8470689	56	2.0	55	96	1	202	40	5	17	36	1.72
8473318--8473359	21	2.0	21	95	0	75	30	14	7	47	1.71
8475799--8475840	22	1.9	22	85	9	59	64	0	35	0	0.94
8476047--8476085	3	13.0	3	100	0	78	33	0	0	66	0.92
8477249--8477327	35	2.2	35	78	14	90	37	0	7	54	1.29
8477949--8477992	19	2.3	18	81	11	52	68	0	2	29	1.02
8484619--8484665	17	2.8	17	75	15	53	34	21	8	36	1.84
8484775--8484958	62	3.0	61	88	6	280	27	22	13	36	1.92
8485136--8485735	36	16.8	36	91	2	958	34	22	24	18	1.96
8493411--8493466	22	2.5	23	83	16	66	23	7	10	58	1.56
8493546--8493603	19	2.8	20	75	15	55	20	6	6	65	1.40
8494780--8494847	20	3.4	20	75	4	75	50	0	0	50	1.00
8494766--8494842	40	1.9	41	94	2	138	51	0	0	48	1.00
8494798--8494853	17	3.2	16	73	22	51	51	1	0	46	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8494828--8494876	23	2.1	24	84	3	64	57	2	0	40	1.10
8494943--8495022	40	2.0	41	82	7	101	53	1	0	45	1.08
8494983--8495082	35	2.9	33	77	12	96	55	3	0	42	1.15
8501799--8501832	15	2.3	15	100	0	68	76	5	11	5	1.14
8505301--8505338	5	7.6	5	88	11	60	81	0	0	18	0.69
8505298--8505337	9	4.7	9	81	12	57	80	0	0	20	0.72
8505371--8505417	3	16.7	3	86	8	64	72	0	0	27	0.85
8505415--8505451	2	18.5	2	100	0	74	51	0	0	48	1.00
8506718--8506821	48	2.2	48	77	6	113	42	4	4	48	1.45
8506832--8506896	30	2.2	29	91	2	103	43	7	4	44	1.53
8506830--8506896	29	2.2	31	92	7	111	43	7	4	44	1.52
8506777--8507049	36	7.6	36	79	10	310	46	5	4	43	1.47
8506777--8507055	73	3.9	72	83	8	356	46	5	4	43	1.48
8507022--8507075	26	2.0	27	92	3	92	50	5	3	40	1.44
8507624--8508738	84	13.4	83	82	4	1155	26	19	23	30	1.98
8509863--8510106	95	2.6	94	88	6	350	31	18	15	34	1.92
8512635--8512729	41	2.3	42	80	8	106	67	5	10	16	1.38
8512882--8512921	3	13.7	3	89	5	64	67	2	0	30	1.04
8512886--8512919	17	2.0	17	94	0	59	70	2	0	26	1.01
8512883--8512921	20	2.0	20	94	0	69	69	2	0	28	1.02
8512919--8512952	2	17.0	2	100	0	68	50	0	0	50	1.00
8514221--8514287	29	2.3	30	89	2	100	43	4	4	47	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8514189--8514323	66	2.1	63	86	6	182	43	5	4	46	1.46
8514175--8514544	102	3.5	100	77	12	284	46	4	3	45	1.42
8514251--8514545	36	8.3	35	76	14	264	46	4	4	45	1.43
8514253--8514620	73	5.1	75	79	12	356	45	4	4	45	1.44
8514355--8514620	36	7.2	38	80	9	298	45	3	3	46	1.38
8518999--8519175	44	4.1	44	92	2	295	21	29	15	33	1.94
8524634--8524667	15	2.3	15	94	0	59	35	8	20	35	1.84
8534696--8534911	2	116.0	2	70	26	138	53	4	0	41	1.26
8534698--8534911	7	29.9	7	74	17	158	53	4	0	41	1.27
8537335--8537379	7	6.4	7	86	0	63	31	24	26	17	1.97

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