genome.fa.s9592.2.7.7.80.10.50.1000.33.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  33  of  39  ( 4673 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)
6567353--6567435	19	4.6	18	75	18	66	45	25	18	10	1.81
6567431--6567559	19	7.3	19	75	17	125	8	17	28	45	1.77
6567431--6567522	33	2.8	33	93	3	150	7	18	28	45	1.76
6567601--6567799	93	2.1	94	95	1	364	45	18	12	23	1.83
6569492--6569614	14	7.7	14	72	24	93	43	22	25	8	1.82
6569484--6569631	33	4.5	33	96	0	278	45	20	24	9	1.81
6569491--6569636	19	8.8	18	71	24	108	43	21	24	9	1.82
6569683--6569747	19	3.7	19	74	19	77	44	21	23	10	1.83
6569571--6569793	111	2.0	111	100	0	446	28	21	23	26	1.99
6569759--6569815	14	3.7	14	75	20	60	8	24	22	43	1.81
6569743--6569862	33	3.4	33	82	9	132	9	24	21	45	1.81
6569799--6569874	20	3.8	20	83	1	98	11	26	18	43	1.84
6569799--6569875	40	1.9	41	89	2	120	11	27	18	42	1.84
6569879--6569909	15	2.1	15	100	0	62	38	19	12	29	1.89
6569969--6570039	33	2.2	33	89	0	106	47	16	23	11	1.79
6570214--6570265	19	2.5	21	72	15	54	19	17	38	25	1.93
6570411--6570604	20	9.6	20	82	5	221	19	19	25	35	1.95
6570411--6570604	60	3.2	60	83	0	253	19	19	25	35	1.95
6570591--6570673	21	4.0	21	73	6	78	25	16	24	33	1.96
6570571--6570669	42	2.4	43	77	11	100	21	18	23	37	1.94
6571623--6571655	15	2.2	15	100	0	66	42	0	6	51	1.26
6577737--6577801	21	3.0	22	78	14	57	49	0	1	49	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6578058--6578085	2	14.0	2	100	0	56	50	0	0	50	1.00
6580407--6580449	18	2.3	19	84	8	61	48	6	2	41	1.43
6581727--6582562	5	168.6	5	88	10	1240	58	0	0	40	1.04
6582748--6582883	36	3.8	36	93	1	227	16	19	18	45	1.86
6583148--6583198	21	2.4	21	93	0	84	21	7	17	52	1.69
6594178--6594220	18	2.3	19	80	15	54	48	4	2	44	1.36
6594394--6594483	2	45.0	2	100	0	180	50	0	0	50	1.00
6595405--6595464	5	12.0	5	77	19	63	60	1	1	36	1.17
6595427--6595481	27	2.0	27	82	6	67	54	5	1	38	1.34
6596318--6596411	23	4.1	23	80	2	91	21	19	23	36	1.95
6596400--6596451	24	2.2	24	82	0	59	21	13	19	46	1.84
6597160--6597193	16	2.1	16	94	0	59	35	5	17	41	1.74
6600257--6600298	15	2.9	15	82	13	52	19	2	11	66	1.34
6602423--6602751	54	6.1	54	85	4	389	32	19	17	30	1.95
6602430--6602795	54	6.8	53	84	4	157	32	19	17	30	1.95
6603710--6603749	21	1.9	21	94	0	71	25	37	25	12	1.91
6611777--6611826	25	2.0	25	96	0	91	40	2	40	18	1.62
6611780--6611832	25	2.3	22	84	12	63	35	1	47	15	1.56
6614463--6614504	20	2.1	20	86	8	59	61	2	2	33	1.21
6614659--6614697	18	2.2	18	86	9	53	46	10	0	43	1.37
6616535--6616614	29	2.7	30	78	16	80	42	2	2	52	1.28
6616483--6616598	21	6.0	18	69	21	58	42	0	2	54	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6616707--6616787	35	2.4	34	81	6	83	46	2	4	45	1.37
6618049--6618111	23	2.8	23	95	2	110	26	19	19	34	1.95
6623652--6623720	29	2.4	29	90	4	104	36	4	7	52	1.49
6624594--6624625	4	8.0	4	92	0	55	28	0	21	50	1.49
6627704--6627732	2	14.5	2	100	0	58	51	0	0	48	1.00
6629268--6629296	13	2.2	13	100	0	58	41	17	6	34	1.76
6635113--6635205	21	4.4	21	80	2	114	43	20	18	18	1.89
6635102--6635205	43	2.4	43	87	4	140	43	21	19	16	1.88
6635360--6635393	6	5.8	6	93	6	61	17	17	17	47	1.84
6638793--6639056	124	2.1	123	85	1	348	32	15	26	26	1.95
6640186--6640354	37	4.6	37	84	2	214	34	21	18	25	1.96
6640199--6640335	73	1.9	73	92	0	229	34	21	20	23	1.97
6640563--6640886	56	5.9	55	82	6	327	35	18	23	23	1.96
6640562--6640904	112	3.1	111	81	3	388	35	17	23	23	1.95
6640895--6641374	55	8.7	55	87	4	630	33	13	22	30	1.93
6640895--6641374	221	2.2	219	86	5	666	33	13	22	30	1.93
6654732--6654787	3	18.3	3	96	3	103	33	0	0	66	0.92
6656181--6656300	30	4.1	30	77	9	86	17	15	8	59	1.60
6656232--6656300	30	2.3	30	87	2	95	17	14	5	62	1.51
6657522--6657575	26	2.2	26	86	6	76	38	1	1	57	1.20
6657771--6657808	3	13.0	3	88	5	60	34	0	0	65	0.93
6663441--6663646	35	5.9	34	75	10	139	33	17	12	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6663735--6663941	94	2.2	94	94	0	360	32	18	12	36	1.88
6664160--6664316	66	2.4	65	92	4	253	32	15	10	41	1.82
6664334--6664463	36	3.9	33	72	19	101	27	12	15	44	1.82
6664468--6664660	64	3.0	64	79	5	217	25	20	15	38	1.92
6664715--6665140	134	3.2	134	83	0	557	25	30	18	24	1.98
6665337--6665392	28	2.2	26	77	22	64	32	0	0	67	0.91
6665356--6665393	3	13.0	3	88	5	60	34	0	0	65	0.93
6674418--6674443	2	13.0	2	100	0	52	50	0	0	50	1.00
6675940--6676643	6	117.3	6	97	2	1326	33	0	16	50	1.46
6676882--6676957	2	38.0	2	100	0	152	50	0	0	50	1.00
6677134--6677176	20	2.2	20	91	0	68	32	11	20	34	1.89
6682349--6682390	20	2.1	20	90	0	66	33	9	21	35	1.86
6684002--6684055	22	2.5	22	90	0	90	22	24	20	33	1.97
6688428--6688463	18	2.0	18	100	0	72	44	27	5	22	1.75
6690801--6690854	2	27.0	2	96	0	99	50	1	0	48	1.11
6691028--6691089	22	2.8	22	90	0	97	22	19	22	35	1.96
6692596--6692636	16	2.6	16	85	11	50	56	2	4	36	1.34
6710484--6710594	40	3.0	37	74	16	120	58	4	9	27	1.48
6713171--6713221	24	2.1	25	92	3	86	27	27	25	19	1.99
6713416--6713486	31	2.3	31	82	2	90	35	22	2	39	1.69
6713894--6713936	21	2.0	21	81	0	50	18	25	25	30	1.98
6719405--6719442	19	2.0	19	100	0	76	26	47	10	15	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6720041--6720099	24	2.4	25	91	8	95	25	27	28	18	1.98
6721779--6721812	17	1.9	18	88	5	52	64	5	0	29	1.17
6722590--6722716	50	2.5	50	87	0	182	22	31	27	18	1.97
6723695--6723729	2	17.5	2	100	0	70	51	0	0	48	1.00
6724207--6724270	16	3.8	16	78	10	65	45	4	0	50	1.22
6724353--6724390	20	1.9	20	94	0	67	44	10	18	26	1.82
6724540--6724628	39	2.3	40	77	16	96	50	3	1	44	1.25
6727322--6727756	216	2.0	219	97	2	833	32	18	17	31	1.94
6729077--6729111	14	2.6	14	95	4	63	37	14	5	42	1.69
6732830--6732891	20	3.2	18	77	11	61	27	30	25	16	1.96
6735137--6735170	9	3.8	9	92	0	59	35	0	14	50	1.44
6735134--6735170	18	2.1	18	100	0	74	32	0	18	48	1.49
6736717--6736762	24	1.9	24	82	8	58	32	19	32	15	1.93
6739818--6739866	25	1.9	26	87	4	73	24	18	24	32	1.97
6739817--6739871	25	2.2	25	80	6	67	23	21	23	30	1.99
6744800--6744856	24	2.3	25	81	6	71	26	19	19	35	1.95
6744813--6744869	25	2.3	24	85	8	71	21	26	24	28	1.99
6745836--6745924	30	2.9	31	85	9	121	41	3	6	48	1.46
6747064--6747526	229	2.0	229	92	0	773	13	23	20	41	1.88
6748674--6748754	15	5.4	15	83	0	99	18	33	8	39	1.81
6750606--6750640	12	2.9	12	95	0	61	28	57	0	14	1.38
6750595--6750633	18	2.2	18	90	0	60	25	58	0	15	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6750579--6750660	30	2.7	30	74	10	78	25	48	0	25	1.51
6755292--6755397	20	5.3	20	73	8	99	42	21	16	19	1.89
6755524--6755575	22	2.4	22	86	0	77	23	40	11	25	1.88
6757606--6757647	21	2.0	21	90	0	66	14	19	33	33	1.91
6758266--6758354	39	2.3	39	96	0	160	19	14	19	47	1.83
6758665--6758701	18	2.1	18	89	0	56	51	10	5	32	1.60
6759088--6759137	25	2.0	25	96	0	91	44	22	8	26	1.80
6759243--6759307	34	1.9	34	93	0	112	21	18	20	40	1.92
6759253--6759370	54	2.2	54	89	0	182	18	18	21	41	1.90
6759656--6759691	18	2.0	18	94	0	63	16	2	25	55	1.55

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