genome.fa.s190.2.7.7.80.10.50.1000.49.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  49  of  62  ( 7381 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)
11390694--11390732	18	2.2	18	85	0	51	23	46	20	10	1.81
11390710--11390734	13	1.9	13	100	0	50	20	48	16	16	1.82
11393303--11393475	57	3.0	57	88	1	249	16	20	30	32	1.95
11397905--11397968	24	2.7	24	77	0	65	25	14	18	42	1.88
11398026--11398254	57	4.0	57	89	0	332	15	19	30	34	1.93
11403022--11403065	23	1.9	23	90	0	70	45	4	4	45	1.44
11405371--11405483	60	1.9	60	81	7	140	37	10	15	37	1.82
11408315--11408396	31	2.8	30	82	10	89	43	7	17	31	1.76
11409378--11409473	48	2.0	48	100	0	192	43	6	27	22	1.77
11421184--11421260	38	2.0	38	100	0	154	36	12	20	29	1.90
11422176--11422299	15	8.5	15	67	28	63	73	0	18	7	1.11
11422185--11422284	17	5.7	18	70	15	68	74	1	19	6	1.09
11422166--11422302	26	5.6	23	76	17	109	73	0	18	7	1.10
11422165--11422306	25	5.6	25	76	15	132	73	0	19	7	1.10
11422176--11422311	18	8.3	15	69	25	64	73	0	18	7	1.10
11423528--11424010	55	8.9	55	84	6	555	28	15	24	30	1.96
11423543--11424010	110	4.3	110	85	6	612	28	16	24	30	1.96
11423883--11424052	55	3.1	53	79	9	137	29	15	22	32	1.94
11429340--11429447	15	8.4	14	67	28	62	37	11	18	32	1.86
11429390--11429432	22	1.9	23	90	4	70	37	9	20	32	1.85
11429328--11429448	36	3.3	37	89	5	185	39	11	18	30	1.86
11429604--11429705	23	4.4	23	75	0	114	21	20	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11429604--11429730	46	2.8	47	75	4	143	21	19	27	31	1.97
11429849--11429914	6	11.0	6	86	0	87	42	0	22	34	1.54
11429849--11429914	18	3.7	18	85	0	96	42	0	22	34	1.54
11429927--11429952	2	13.0	2	100	0	52	0	0	50	50	1.00
11433927--11434247	20	14.2	20	68	21	147	20	23	10	44	1.83
11433915--11434164	66	3.7	66	71	15	222	20	22	10	45	1.82
11433947--11434268	46	7.0	46	92	0	518	20	22	10	45	1.82
11436330--11436393	24	2.7	24	77	0	65	25	14	18	42	1.88
11436452--11436679	57	4.0	57	88	0	321	15	19	30	34	1.93
11443191--11443303	60	1.9	60	81	7	140	37	10	15	37	1.82
11446132--11446213	31	2.8	30	82	10	89	43	7	17	31	1.76
11449552--11449585	18	1.9	18	88	5	52	50	0	20	29	1.49
11459868--11459996	45	2.9	44	89	3	186	38	13	19	27	1.90
11459986--11460025	15	2.9	14	85	7	55	37	10	20	32	1.85
11459942--11460026	37	2.4	35	80	9	109	37	11	21	29	1.89
11460182--11460299	23	5.1	23	82	0	146	20	21	26	32	1.97
11460296--11460331	2	18.0	2	94	0	54	5	0	44	50	1.25
11461306--11461523	31	7.0	31	94	1	366	37	22	20	20	1.95
11462449--11462492	21	2.1	21	86	0	61	15	25	27	31	1.96
11466934--11467196	20	12.2	20	69	23	144	20	23	11	44	1.83
11466954--11467161	46	4.5	46	92	2	355	20	23	11	44	1.84
11466974--11467151	26	7.5	26	70	21	158	20	23	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11467122--11467195	34	2.2	34	97	0	139	21	20	10	47	1.80
11470737--11470817	23	3.5	23	82	0	90	29	25	24	19	1.99
11472379--11472447	20	3.8	20	71	25	80	18	31	20	28	1.96
11472382--11472460	33	2.4	33	97	0	149	18	34	16	30	1.94
11483559--11483594	5	7.2	5	90	0	54	25	19	16	38	1.92
11486189--11486269	41	2.0	41	100	0	162	44	20	9	24	1.82
11488280--11488328	14	3.2	15	82	11	55	61	2	0	36	1.08
11488297--11488344	14	3.4	14	82	8	62	58	2	0	39	1.10
11490148--11490180	15	2.2	16	89	10	52	18	15	3	63	1.43
11490862--11490886	13	1.9	13	100	0	50	52	0	0	48	1.00
11494817--11494851	2	17.5	2	87	0	52	45	0	5	48	1.26
11498364--11498559	97	2.0	98	98	1	385	35	6	18	40	1.75
11502960--11502984	11	2.3	11	100	0	50	24	20	16	40	1.91
11503324--11503508	91	2.0	91	100	0	370	50	8	12	28	1.69
11507680--11507755	2	38.0	2	100	0	152	50	0	0	50	1.00
11519892--11519930	12	3.2	12	85	7	51	66	0	0	33	0.92
11519892--11519928	11	3.1	12	88	11	58	67	0	0	32	0.91
11520112--11520154	16	2.6	16	85	3	59	34	0	30	34	1.58
11528470--11528603	67	2.0	67	100	0	268	43	20	8	26	1.82
11529636--11529666	16	1.9	16	93	0	53	61	6	3	29	1.37
11532291--11532333	21	2.0	21	86	0	59	30	27	25	16	1.97
11532362--11532406	22	2.0	22	91	4	72	28	33	26	11	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11533688--11533905	103	2.1	103	93	0	373	26	13	24	35	1.93
11533930--11533989	23	2.6	23	89	5	86	20	25	26	28	1.99
11534913--11534970	20	2.7	20	84	10	71	31	18	22	27	1.97
11538796--11538847	19	2.7	19	96	0	95	30	17	28	23	1.97
11543494--11543549	20	2.8	20	94	0	94	30	25	28	16	1.96
11544238--11544288	19	2.5	21	81	15	63	31	7	21	39	1.82
11544261--11544297	19	1.9	19	88	0	56	37	8	21	32	1.83
11544440--11544500	22	2.8	22	92	0	95	27	22	24	24	2.00
11546224--11546258	18	1.9	18	94	0	61	28	28	20	22	1.98
11547014--11547077	23	2.7	23	77	15	69	35	23	23	17	1.95
11547786--11547830	21	2.1	21	87	0	63	31	28	24	15	1.96
11548692--11548845	31	5.0	31	93	1	256	22	20	20	37	1.95
11549590--11549633	21	2.1	21	91	0	70	31	25	20	22	1.98
11550793--11550853	23	2.7	23	86	0	86	29	27	26	16	1.97
11552517--11552557	21	2.0	21	85	0	55	36	17	17	29	1.92
11553416--11553458	20	2.2	20	83	8	52	39	16	0	44	1.48
11555876--11555914	20	2.0	20	84	0	51	23	7	23	46	1.78
11556091--11556150	23	2.7	23	80	10	72	16	23	36	23	1.94
11565169--11565227	23	2.6	23	91	0	100	27	28	27	16	1.97
11570717--11570859	64	2.2	64	84	7	175	25	18	21	34	1.96
11570757--11570877	64	1.9	64	86	3	172	25	15	23	35	1.94
11575212--11575313	44	2.3	45	83	5	118	28	14	21	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11577996--11578057	23	2.7	23	87	0	97	25	25	27	20	1.99
11583850--11583901	20	2.6	20	100	0	104	30	25	11	32	1.91
11588254--11588373	42	2.9	42	79	7	127	27	24	20	27	1.99
11596407--11596442	11	3.4	11	96	3	65	55	11	0	33	1.35
11597694--11597782	29	3.0	30	70	11	83	35	22	4	37	1.75
11602578--11602626	19	2.6	19	93	0	80	24	30	14	30	1.94
11611016--11611048	13	2.5	13	100	0	66	30	33	21	15	1.94
11616570--11616602	13	2.5	13	100	0	66	30	33	21	15	1.94
11623622--11623662	20	2.0	20	86	9	57	56	21	0	21	1.43
11623674--11623738	23	2.9	22	82	11	69	56	26	0	16	1.40
11625617--11625719	44	2.3	44	91	0	170	28	20	21	30	1.98
11629915--11629955	15	2.7	15	96	0	73	26	29	9	34	1.88
11632178--11632433	124	2.1	124	98	0	494	37	22	10	29	1.87
11642705--11642747	20	2.1	21	87	8	63	18	13	0	67	1.23
11642704--11642753	20	2.5	20	75	15	59	18	18	0	64	1.30
11652075--11652128	23	2.3	23	80	0	72	18	24	24	33	1.97
11653106--11653142	19	2.0	18	89	5	56	13	8	0	78	0.96
11653428--11653495	21	3.0	23	79	16	79	16	16	0	67	1.23
11654783--11654821	18	2.2	18	90	0	60	15	43	12	28	1.83
11661352--11661390	20	2.1	19	85	9	53	30	5	35	28	1.79
11662050--11662104	23	2.4	23	87	6	76	27	14	23	34	1.94
11662902--11662946	23	2.0	23	86	0	63	26	26	26	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11663061--11663129	25	2.8	25	100	0	138	27	26	28	17	1.97
11664698--11664858	64	2.5	63	84	8	191	27	22	17	32	1.96
11668079--11668123	23	2.0	23	86	0	63	26	26	26	20	1.99
11668238--11668306	25	2.8	25	93	0	111	31	26	24	17	1.97
11669875--11670035	64	2.5	63	84	8	191	27	22	17	32	1.96
11675869--11675907	20	2.0	20	89	0	60	33	23	10	33	1.88
11679959--11680035	18	4.2	18	83	9	93	22	20	31	25	1.98
11683350--11683374	12	2.1	12	100	0	50	56	0	12	32	1.36
11686842--11686887	2	23.0	2	86	0	65	56	0	43	0	0.99
11686841--11686887	12	3.9	12	91	0	76	57	0	42	0	0.98

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