genome.fa.s8016.2.7.7.80.10.50.1000.25.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  25  of  25  ( 2971 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)
5322121--5322225	22	5.0	21	68	27	64	47	0	1	50	1.12
5322121--5322198	6	13.3	6	75	23	53	48	0	0	51	1.00
5322126--5322203	15	6.1	12	74	22	54	50	0	0	50	1.00
5324623--5324711	16	5.4	16	69	7	61	49	6	2	41	1.41
5334453--5334536	37	2.3	37	91	0	132	45	2	16	35	1.61
5337314--5337376	31	2.0	31	100	0	126	15	15	15	52	1.75
5337314--5337384	31	2.3	30	90	7	99	18	15	15	50	1.78
5337810--5337861	25	2.1	25	96	0	95	28	32	11	26	1.91
5340333--5340621	123	2.3	121	89	9	435	19	4	24	51	1.65
5342143--5342218	16	4.6	16	78	8	73	55	6	1	36	1.34
5342515--5342618	54	1.9	55	88	2	156	28	19	17	34	1.94
5344844--5344938	38	2.5	39	83	10	117	46	31	10	11	1.74
5344919--5344995	29	2.6	30	79	2	75	44	24	6	24	1.77
5344916--5344995	30	2.7	29	80	3	88	42	23	6	27	1.78
5347483--5347518	2	18.0	2	100	0	72	50	0	0	50	1.00
5347528--5347581	21	2.4	23	80	20	62	53	0	0	46	1.00
5349615--5350036	105	4.1	105	82	4	453	31	12	26	29	1.93
5349666--5350042	209	1.8	207	83	3	506	32	12	26	28	1.93
5352888--5353223	168	2.0	166	97	2	638	36	24	14	25	1.93
5353777--5354185	105	3.9	103	80	6	387	30	13	25	30	1.94
5360398--5360453	22	2.5	22	85	8	69	41	3	7	48	1.48
5360465--5360514	25	2.1	24	85	7	66	34	2	2	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5362138--5362176	2	19.5	2	100	0	78	48	0	0	51	1.00
5362371--5362460	6	14.8	6	88	6	128	21	1	0	77	0.83
5362372--5362460	37	2.4	36	85	12	103	21	1	0	77	0.83
5366676--5366932	96	2.7	95	82	4	293	33	15	17	33	1.91
5368222--5368302	36	2.2	36	86	2	117	32	18	11	38	1.86
5368222--5368407	101	1.9	100	86	3	266	27	18	12	41	1.86
5368315--5368473	73	2.2	73	87	1	221	25	21	13	39	1.90
5368315--5368473	37	4.4	36	83	3	194	25	21	13	39	1.90
5368526--5368646	33	3.6	33	83	7	154	41	21	7	29	1.80
5371096--5371652	162	3.4	164	85	2	726	33	17	19	28	1.95
5371112--5371652	248	2.2	245	84	1	706	34	17	19	28	1.95
5371096--5371652	83	6.8	82	82	3	647	33	17	19	28	1.95
5372620--5372689	30	2.3	31	87	5	97	54	24	7	14	1.65
5377121--5377173	21	2.5	21	81	0	70	20	22	18	37	1.94
5377163--5377276	20	5.7	20	87	2	174	37	20	21	21	1.94
5377163--5377294	40	3.3	40	87	3	176	36	21	21	21	1.95
5377461--5377536	22	3.5	22	90	0	116	26	39	14	19	1.90
5377874--5377941	20	3.4	21	82	9	72	13	14	22	50	1.77
5379806--5379947	20	7.8	20	75	20	123	43	21	19	15	1.87
5379860--5379964	20	5.7	19	74	17	87	44	20	18	16	1.86
5379827--5379958	67	1.9	67	87	9	192	44	21	18	14	1.86
5379976--5380059	20	4.2	20	89	0	87	23	17	21	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5379976--5380059	40	2.1	40	84	0	105	23	17	21	36	1.94
5380007--5380069	20	3.2	20	86	0	63	15	17	22	44	1.86
5380540--5380650	42	2.6	42	78	5	118	22	37	17	22	1.94
5382196--5382315	33	3.4	33	83	8	123	14	23	23	39	1.91
5382247--5382331	40	2.1	40	93	4	145	16	20	25	37	1.93
5382247--5382321	20	3.8	20	90	0	123	17	21	25	36	1.95
5385504--5385580	3	25.7	3	97	0	145	64	0	1	33	1.01
5385898--5386458	113	5.0	113	93	1	905	29	19	13	37	1.90
5387110--5388031	82	11.2	82	93	2	1492	35	22	12	29	1.91
5389170--5389235	16	4.1	15	84	9	78	3	12	0	84	0.72
5389169--5389238	7	9.4	7	79	13	70	2	14	0	82	0.77
5400092--5400136	15	3.1	14	81	12	56	51	0	0	48	1.00
5400580--5400884	155	2.0	154	92	7	523	43	11	18	26	1.83
5401776--5401805	11	2.8	11	95	5	53	43	0	0	56	0.99
5401801--5401864	3	21.7	3	93	3	112	64	0	1	34	1.03
5403572--5403731	79	2.0	80	98	1	313	35	10	18	36	1.84
5404028--5404113	20	4.4	20	86	2	104	26	18	23	31	1.97
5404102--5404173	20	3.5	20	76	10	83	20	20	20	37	1.95
5404082--5404173	41	2.3	40	88	1	130	21	20	21	35	1.96
5408606--5408632	13	2.1	13	100	0	54	33	14	14	37	1.88
5417792--5418006	106	2.0	106	100	0	430	32	13	26	27	1.94
5418013--5418053	18	2.3	19	87	8	59	29	2	2	65	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5421174--5421218	17	2.6	17	92	0	72	13	6	15	64	1.47
5424282--5424398	21	5.6	21	90	0	180	30	25	21	22	1.98
5424547--5424593	6	8.0	6	97	2	87	31	51	17	0	1.46
5425095--5425130	10	3.3	11	92	7	56	0	16	55	27	1.42
5425092--5425126	5	6.6	5	96	3	52	0	20	54	25	1.45
5425254--5425342	21	4.3	20	78	16	92	30	24	20	24	1.99
5425310--5425373	21	3.1	21	76	17	71	25	23	18	32	1.97
5425381--5425543	21	7.8	21	83	6	206	22	22	25	30	1.99
5425407--5425523	62	1.9	62	89	3	182	22	22	23	32	1.98
5426003--5426062	29	2.0	30	84	12	79	40	0	1	58	1.08
5426692--5426773	4	20.0	4	75	14	69	25	1	3	69	1.12
5426696--5426772	22	3.7	21	76	13	88	24	1	3	70	1.12
5426697--5426772	40	1.9	40	94	0	134	25	1	3	69	1.13
5426722--5426768	18	2.6	18	93	0	76	27	2	2	68	1.13
5429006--5429051	17	2.7	17	100	0	92	28	34	19	17	1.94
5433908--5434465	200	2.8	197	77	5	564	36	19	10	32	1.86
5436697--5436727	16	1.9	16	93	0	53	45	12	16	25	1.83
5439819--5439845	11	2.5	11	100	0	54	18	33	11	37	1.86
5446886--5446926	3	13.7	3	100	0	82	34	0	0	65	0.93
5450300--5450365	3	21.0	3	82	11	62	39	0	0	60	0.97
5450300--5450377	27	3.2	23	77	15	84	42	0	0	57	0.98
5451732--5451794	3	21.0	3	77	18	60	28	1	1	68	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5452448--5452494	23	2.0	24	95	4	87	38	17	14	29	1.89
5464053--5464081	2	14.5	2	100	0	58	0	48	0	51	1.00
5464302--5464343	2	21.0	2	90	0	66	47	4	0	47	1.23

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

The End!