genome.fa.s260.2.7.7.80.10.50.1000.24.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  24  of  26  ( 3102 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)
4903007--4903145	44	3.2	44	65	10	115	29	18	20	31	1.96
4903826--4903867	14	2.9	14	86	13	59	64	14	7	14	1.48
4906914--4906965	24	2.2	24	100	0	104	11	42	11	34	1.77
4911079--4911147	30	2.2	30	82	15	86	36	5	17	40	1.74
4911088--4911147	29	2.0	31	90	6	97	35	6	16	41	1.75
4911219--4911260	21	2.0	21	90	0	66	23	23	26	26	2.00
4911289--4911328	20	1.9	21	85	10	55	37	37	10	15	1.80
4913524--4913567	16	2.9	16	83	6	56	77	4	13	4	1.08
4919511--4919575	24	2.7	24	95	0	112	35	24	12	27	1.91
4923996--4924088	42	2.2	42	90	0	150	25	30	11	32	1.92
4934077--4934405	164	2.0	164	100	0	658	33	13	17	35	1.89
4939104--4939393	145	2.0	145	100	0	580	35	15	17	31	1.91
4940868--4940932	24	2.7	24	92	0	112	35	24	12	27	1.91
4945345--4945434	38	2.2	40	86	7	130	24	28	14	32	1.94
4949991--4950206	95	2.3	92	85	5	267	23	20	27	27	1.99
4955631--4956115	105	4.6	105	87	2	654	25	20	15	37	1.93
4958661--4958703	18	2.5	17	85	10	61	6	11	2	79	1.02
4958683--4958762	20	4.3	19	76	20	80	13	8	0	77	0.99
4958656--4958762	35	3.1	34	76	19	114	10	10	0	78	1.01
4958716--4958786	14	5.3	14	73	14	60	9	11	0	78	0.95
4958736--4958786	24	2.1	24	82	7	59	9	11	0	78	0.97
4961293--4961332	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4961889--4962025	54	2.6	54	88	1	186	32	17	18	32	1.94
4981225--4981283	21	2.8	21	80	17	68	72	0	18	8	1.09
4981234--4981297	13	5.1	13	75	9	53	73	0	18	7	1.07
4981228--4981274	7	6.9	7	78	11	53	78	0	17	4	0.90
4981252--4981316	27	2.4	28	79	7	80	76	0	15	7	0.99
4982253--4982661	105	3.9	105	90	1	615	39	16	19	24	1.91
4985135--4985175	2	20.5	2	100	0	82	51	0	0	48	1.00
4985720--4985925	54	3.8	53	87	3	277	31	17	16	33	1.93
4992575--4992616	21	2.0	21	95	0	75	35	26	19	19	1.95
4992846--4992912	27	2.5	27	97	0	125	31	35	13	19	1.90
4993216--4993307	20	4.6	20	85	4	114	48	19	18	13	1.80
4993333--4993410	19	4.0	20	91	5	115	12	19	17	50	1.78
4993333--4993411	39	2.1	38	90	2	122	12	20	17	49	1.79
4995384--4995450	21	3.2	21	64	6	55	25	35	19	19	1.95
4995362--4995450	42	2.1	42	83	8	110	24	35	19	20	1.95
4996790--4996823	14	2.4	14	90	0	50	35	2	17	44	1.64
4996932--4996997	19	3.7	19	69	19	61	45	18	21	15	1.85
4996982--4997025	18	2.4	19	92	3	72	47	27	13	11	1.77
4997025--4997118	33	2.8	33	95	0	170	12	23	19	44	1.85
4997025--4997262	119	2.0	119	97	0	449	13	23	19	42	1.87
4997058--4997258	86	2.3	83	83	11	212	13	22	20	42	1.87
4997210--4997317	20	5.8	19	73	13	82	17	21	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4997177--4997317	72	1.9	73	89	1	221	16	21	20	41	1.90
4997133--4997290	33	4.6	33	83	12	201	14	22	19	43	1.88
4999622--4999792	69	2.5	69	97	0	315	36	21	14	28	1.92
4999763--4999816	24	2.2	24	93	0	90	40	20	18	20	1.91
5000670--5000921	20	12.5	20	76	8	188	20	17	23	38	1.93
5000670--5000902	60	3.8	60	78	9	233	20	17	23	38	1.93
5000712--5000882	41	4.2	40	77	10	122	21	17	24	36	1.94
5000971--5001024	20	2.7	19	75	8	63	16	18	31	33	1.93
5003198--5003529	178	1.9	178	100	0	664	21	23	28	26	1.99
5009716--5009753	19	2.0	19	100	0	76	15	26	15	42	1.87
5010141--5010189	23	2.1	23	81	7	55	59	10	4	26	1.48
5011404--5011465	3	20.7	3	86	6	90	64	0	0	35	0.94
5011812--5012133	113	2.8	113	84	0	446	27	20	13	38	1.90
5013881--5014055	76	2.3	76	84	1	217	29	21	17	30	1.96
5015203--5015428	114	2.0	114	89	1	346	30	19	15	33	1.94
5017570--5017673	17	5.9	18	80	7	117	3	22	0	74	0.98
5017572--5017604	10	3.4	10	95	4	59	0	18	0	81	0.68
5017566--5017674	8	12.7	9	75	19	83	3	21	0	75	0.96
5017660--5017713	26	2.0	26	96	3	99	3	14	11	70	1.29
5020428--5020473	6	7.7	6	87	0	65	52	10	17	19	1.74
5022055--5022113	26	2.3	26	85	11	77	74	0	1	23	0.91
5022055--5022112	22	2.8	21	80	19	68	74	0	1	24	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5022063--5022103	11	3.7	11	81	18	50	75	0	0	24	0.80
5022078--5022116	18	2.2	18	86	9	53	71	0	2	25	0.98
5024291--5024382	42	2.3	40	78	16	100	28	21	7	42	1.80
5030650--5030708	21	2.8	21	80	12	66	28	27	20	23	1.99
5035332--5035447	41	2.9	38	72	15	108	29	10	24	36	1.88
5035271--5035444	82	2.1	83	83	9	214	27	12	23	36	1.91
5037096--5037287	82	2.3	82	81	5	208	31	15	18	34	1.92
5037008--5037286	83	3.4	82	76	5	249	31	16	17	34	1.92
5037294--5037384	41	2.2	41	82	7	105	32	20	19	26	1.97
5046250--5046286	19	1.9	19	88	0	56	43	5	13	37	1.67
5046411--5046452	21	1.9	23	85	9	61	45	7	23	23	1.78
5049173--5049396	43	5.2	43	80	3	218	33	22	16	27	1.96
5049173--5049388	85	2.5	85	82	2	245	32	22	17	27	1.96
5050002--5050095	41	2.3	41	87	3	127	31	19	17	31	1.94
5055761--5055820	25	2.4	25	94	0	102	35	26	0	38	1.57
5055803--5055836	16	2.1	16	100	0	68	47	23	0	29	1.52
5064209--5064339	47	2.7	49	79	10	137	29	21	6	41	1.79
5067600--5067659	25	2.4	25	94	0	102	35	26	0	38	1.57
5067642--5067675	16	2.1	16	100	0	68	47	23	0	29	1.52
5068184--5068234	20	2.5	20	100	0	102	15	25	43	15	1.86
5068833--5068907	39	1.9	39	83	5	98	48	0	2	49	1.15
5071883--5071944	21	2.9	21	73	4	61	51	0	1	46	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5072069--5072112	23	2.0	23	82	13	56	45	0	4	50	1.22
5072118--5072144	14	1.9	14	100	0	54	37	3	0	59	1.15
5072234--5072277	14	3.2	13	84	12	52	56	2	0	40	1.11
5072246--5072277	15	2.3	15	89	10	50	59	3	0	37	1.13
5075228--5075268	21	2.0	21	100	0	82	46	0	39	14	1.45
5075228--5075263	12	3.2	12	77	22	51	47	0	36	16	1.47
5076682--5076761	35	2.3	35	89	4	117	41	22	1	35	1.62
5076682--5076782	35	2.9	35	82	4	114	41	25	1	30	1.67
5076936--5077222	148	1.9	148	91	1	468	35	8	10	45	1.69
5077697--5077776	35	2.3	35	86	4	108	37	0	20	42	1.52
5081205--5081250	20	2.2	21	88	3	67	43	28	15	13	1.83
5082980--5083027	20	2.5	20	86	10	64	47	4	16	31	1.65
5084685--5084729	20	2.2	20	88	0	63	44	26	15	13	1.83
5086616--5086709	10	8.6	10	71	17	71	39	21	4	35	1.73
5086610--5086709	33	3.1	33	85	2	130	39	23	4	34	1.73
5086638--5086709	22	3.3	20	77	12	63	37	23	4	34	1.74
5089169--5089244	19	4.2	19	71	10	59	39	2	18	39	1.65
5094417--5094488	35	2.1	35	91	0	117	31	22	6	38	1.81
5098417--5098682	142	1.9	142	87	6	396	36	9	16	37	1.81
5098967--5099138	74	2.3	73	75	9	170	35	12	8	43	1.73
5099474--5100311	187	4.5	187	80	5	822	30	18	13	38	1.89
5101149--5101436	143	2.0	143	97	0	540	31	20	9	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5101818--5101847	2	15.0	2	100	0	60	50	0	0	50	1.00
5104275--5104582	82	3.7	82	87	3	438	36	10	19	34	1.86
5104276--5104581	167	1.8	164	86	4	409	36	10	18	34	1.85
5119625--5119679	27	2.0	27	100	0	110	38	14	7	40	1.74
5125891--5125932	21	2.0	21	85	4	57	16	7	23	52	1.68
5129303--5129352	24	2.1	24	88	7	75	58	14	4	24	1.53
5131553--5131595	14	3.0	15	83	10	54	76	6	0	16	0.99
5134729--5134778	24	2.1	24	88	7	75	58	14	2	26	1.47
5136283--5136314	15	2.1	15	94	0	55	78	0	9	12	0.97
5136317--5136382	16	4.1	17	73	26	72	63	1	1	33	1.13

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