genome.fa.s8364.2.7.7.80.10.50.1000.24.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  24  of  27  ( 3136 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)
5354191--5354540	183	1.9	183	94	0	619	28	20	21	30	1.98
5355828--5355914	37	2.4	37	88	1	122	25	20	13	40	1.89
5355733--5355980	102	2.4	105	87	4	369	31	20	13	35	1.91
5355864--5356043	66	2.8	66	90	4	269	31	21	12	34	1.90
5355760--5356145	166	2.3	169	91	4	613	31	20	12	35	1.90
5356096--5356181	36	2.4	36	86	3	111	25	18	13	41	1.88
5355930--5356276	100	3.5	100	87	5	460	31	19	11	36	1.88
5356236--5356350	36	3.1	36	85	4	167	29	20	11	39	1.87
5356390--5356504	33	3.5	33	88	5	153	38	18	10	33	1.85
5356459--5356645	67	2.7	67	84	3	239	29	21	12	36	1.90
5356964--5357196	106	2.2	107	85	2	317	35	25	17	21	1.95
5358724--5358771	13	3.6	14	78	13	57	25	2	4	68	1.18
5360166--5360384	115	1.9	115	95	1	395	33	20	15	30	1.93
5367066--5367101	6	6.0	6	93	0	63	36	13	33	16	1.89
5368152--5368379	122	1.9	122	79	7	257	57	10	11	20	1.64
5379621--5379688	30	2.3	30	86	0	91	42	19	7	30	1.78
5382149--5382202	20	2.7	19	73	18	56	33	29	18	18	1.95
5382231--5382441	20	10.5	20	83	4	201	36	24	18	20	1.95
5382272--5382441	60	2.8	60	88	0	232	36	24	19	20	1.95
5385733--5385781	20	2.5	20	82	0	62	32	20	22	24	1.98
5385829--5385897	20	3.8	19	74	20	76	13	21	18	46	1.83
5386108--5386162	20	2.7	21	91	5	87	36	23	18	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5386134--5386265	38	3.8	33	78	11	129	45	18	20	15	1.85
5386167--5386265	19	5.4	19	78	12	118	47	16	19	17	1.83
5386267--5386327	19	3.2	19	95	2	104	14	21	18	45	1.84
5386427--5386463	14	2.6	14	91	0	56	45	21	0	32	1.52
5386513--5386706	96	2.0	97	96	3	365	40	25	9	24	1.85
5387889--5387955	21	3.2	21	68	4	55	19	20	35	23	1.95
5387889--5388011	42	2.9	41	79	7	113	22	18	36	21	1.95
5389978--5390066	20	4.8	19	74	16	89	47	19	21	12	1.82
5389978--5390066	39	2.4	37	85	12	114	47	19	21	12	1.82
5390662--5390917	20	12.7	20	77	8	191	21	17	23	36	1.95
5390664--5390955	41	7.2	41	80	8	296	20	17	23	37	1.94
5390662--5390917	61	4.2	58	73	12	194	21	17	23	36	1.95
5390744--5390955	20	10.5	20	72	16	109	19	17	25	37	1.93
5394788--5394817	7	4.3	7	100	0	60	40	13	33	13	1.83
5395416--5395540	32	3.7	32	80	13	142	14	9	36	40	1.79
5395430--5395540	33	3.2	35	81	14	142	14	9	36	39	1.79
5396003--5396054	26	2.0	26	100	0	104	46	15	3	34	1.64
5397053--5397086	16	2.2	16	89	5	52	29	5	55	8	1.54
5397762--5397794	17	2.0	17	88	5	50	39	0	3	57	1.14
5408450--5408528	22	3.7	22	73	13	67	5	22	10	62	1.47
5408455--5408525	19	3.6	19	75	14	63	5	22	11	60	1.51
5409094--5409196	48	2.1	49	90	1	163	24	12	22	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5411600--5411635	3	12.0	3	93	0	63	33	0	63	2	1.08
5419295--5419628	164	2.0	164	91	0	542	30	14	16	38	1.89
5420771--5420875	49	2.1	49	98	0	201	24	26	11	37	1.90
5422052--5422288	118	2.0	118	100	0	474	43	12	13	30	1.80
5422170--5423253	392	2.8	393	93	0	1830	44	11	11	32	1.78
5423317--5423357	20	2.0	20	100	0	82	29	43	0	26	1.55
5426004--5426066	30	2.0	32	82	14	78	46	1	6	46	1.38
5426187--5426259	37	1.9	38	86	2	103	42	4	8	45	1.53
5428512--5428562	22	2.3	22	93	6	86	21	47	11	19	1.81
5428963--5429014	19	2.7	19	81	3	59	15	19	25	40	1.90
5428952--5429037	20	4.4	20	80	4	104	13	16	23	46	1.83
5430947--5430995	20	2.5	20	96	0	89	36	26	22	14	1.92
5431096--5431165	20	3.5	20	82	2	86	18	20	24	37	1.94
5431152--5431195	20	2.2	20	91	0	70	15	13	20	50	1.78
5431674--5431786	21	5.4	21	82	4	95	24	38	15	21	1.91
5431672--5431786	42	2.7	42	74	5	115	24	39	15	20	1.92
5433153--5433226	20	3.7	20	81	3	78	44	24	17	13	1.85
5433269--5433425	20	7.8	20	95	0	251	26	15	24	33	1.95
5435893--5435970	24	3.2	24	96	0	138	38	20	20	20	1.94
5436791--5436837	20	2.3	20	92	0	76	27	19	25	27	1.99
5436944--5436980	19	1.9	19	88	0	56	21	16	27	35	1.94
5444009--5444048	12	3.6	12	87	12	59	45	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5444032--5444420	66	5.9	65	86	1	546	44	0	8	47	1.34
5444035--5444420	22	17.6	22	83	7	491	43	0	8	47	1.34
5444444--5444502	31	1.9	31	96	0	109	44	6	5	44	1.52
5452116--5452392	87	3.2	87	94	0	455	41	9	14	34	1.79
5452180--5452227	23	2.1	23	92	0	78	39	8	18	33	1.81
5452270--5452314	23	2.0	23	86	0	63	40	6	15	37	1.74
5452870--5452946	30	2.5	30	80	15	79	49	1	1	48	1.17
5452833--5452915	42	2.0	42	81	9	98	51	0	1	46	1.08
5452870--5452937	30	2.3	31	82	12	81	50	1	0	48	1.10
5452945--5453035	23	3.8	24	75	19	75	50	0	1	48	1.08
5452978--5453045	24	2.9	24	82	12	79	44	1	0	54	1.09
5453810--5453852	2	21.5	2	100	0	86	48	0	0	51	1.00
5461383--5461436	3	17.3	3	88	7	81	0	37	0	62	0.95
5462525--5462586	30	2.1	30	100	0	124	41	12	9	35	1.76
5463640--5463699	27	2.3	27	94	5	106	28	8	26	36	1.85
5463841--5463882	21	2.0	20	86	4	57	38	14	7	40	1.73
5469770--5469811	19	2.2	18	84	16	50	47	4	2	45	1.36
5472321--5472362	21	2.0	20	86	4	57	38	14	7	40	1.73
5475530--5475571	19	2.2	18	84	16	50	47	4	2	45	1.36
5478535--5478576	21	2.0	20	86	4	57	38	14	7	40	1.73
5483871--5483907	17	2.2	17	90	0	56	45	8	2	43	1.47
5487704--5487858	68	2.3	68	90	0	238	46	14	15	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5493412--5493446	16	2.1	17	94	5	63	42	25	0	31	1.55
5498091--5498124	17	1.9	18	88	5	52	64	17	2	14	1.40
5498161--5498199	19	2.1	19	85	0	51	56	7	2	33	1.41
5498628--5498707	42	1.9	42	84	0	106	23	16	30	30	1.96
5501781--5502082	152	2.0	150	96	3	554	26	30	14	28	1.95
5503482--5503947	53	8.6	54	84	4	568	28	29	14	27	1.95
5503482--5504147	108	6.3	109	84	8	763	28	28	14	27	1.95
5503906--5503987	41	2.0	41	92	0	137	32	24	13	29	1.93
5503947--5504153	56	3.9	54	85	6	280	27	28	16	28	1.97
5503800--5504095	149	2.0	145	84	5	380	29	28	14	28	1.95
5503746--5504147	202	2.0	201	85	6	546	28	28	14	27	1.96
5505121--5505186	8	7.9	8	76	18	55	12	4	0	83	0.79
5505119--5505183	21	3.0	22	84	8	73	12	6	0	81	0.86
5505150--5505179	12	2.5	12	100	0	60	6	0	0	93	0.35
5505143--5505209	21	3.0	22	84	8	82	10	5	0	83	0.80
5505143--5505186	1	44.0	1	81	0	52	9	0	0	90	0.44
5505143--5505209	10	6.2	11	81	13	61	10	5	0	83	0.80
5507111--5507144	16	2.1	16	100	0	68	32	29	17	20	1.96
5527443--5527500	22	2.5	24	78	18	70	44	1	0	53	1.10
5528469--5528526	30	1.9	31	82	6	75	32	24	17	25	1.96
5531985--5532635	347	1.9	345	90	1	1036	34	16	12	36	1.87
5532526--5532750	114	2.0	114	95	0	405	40	19	10	30	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5533815--5533879	30	2.2	31	83	10	82	29	13	24	32	1.94
5554208--5554252	22	2.0	22	100	0	90	8	24	48	17	1.75
5554281--5554330	20	2.4	22	83	12	70	32	24	26	18	1.97
5554274--5554339	10	6.8	9	73	13	51	30	25	25	18	1.98
5554281--5554339	20	2.9	19	80	9	64	32	23	25	18	1.97
5554281--5554339	10	5.9	10	74	18	52	32	23	25	18	1.97
5561517--5561554	17	2.2	17	100	0	76	10	23	47	18	1.79
5561510--5561573	22	2.8	22	90	4	92	12	21	46	18	1.82
5561517--5561573	17	3.1	17	75	22	60	10	21	49	19	1.78
5563334--5563380	20	2.4	19	82	10	67	53	10	17	19	1.72

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