genome.fa.s8082.2.7.7.80.10.50.1000.26.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  26  of  28  ( 3312 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)
5371189--5371377	82	2.3	82	87	0	263	35	14	13	36	1.86
5371075--5371507	204	2.1	205	85	2	575	36	16	12	35	1.86
5372352--5372824	41	11.6	41	73	9	313	34	17	13	35	1.88
5372409--5372787	82	4.6	82	83	3	442	35	17	12	35	1.87
5372352--5372772	163	2.6	164	84	3	499	35	17	12	34	1.87
5372372--5372895	123	4.3	123	78	4	513	34	16	13	35	1.88
5372352--5372895	41	13.3	39	71	8	218	34	17	13	34	1.88
5377280--5377341	21	3.0	20	68	13	54	11	22	35	30	1.89
5380542--5380864	159	2.0	161	98	1	623	23	21	14	41	1.89
5381256--5381295	21	1.9	21	85	10	55	35	10	2	52	1.48
5385193--5385242	24	2.0	25	84	3	66	60	8	2	30	1.37
5385696--5385925	112	2.1	111	92	2	381	35	19	17	28	1.94
5392648--5392878	112	2.1	111	92	2	383	36	18	16	28	1.93
5396860--5396903	21	2.1	21	100	0	88	31	13	25	29	1.94
5397794--5397818	6	4.2	6	100	0	50	16	16	36	32	1.90
5403350--5403402	22	2.4	22	100	0	106	20	35	20	22	1.96
5405688--5405721	17	2.0	17	88	0	50	47	0	5	47	1.26
5406398--5406437	21	1.9	21	84	0	53	30	20	15	35	1.93
5407112--5407262	61	2.5	61	88	4	198	35	23	19	20	1.96
5407115--5407302	20	9.2	20	76	11	159	37	25	18	19	1.94
5407122--5407302	41	4.4	40	82	4	177	37	24	17	20	1.94
5407115--5407301	101	1.8	102	89	3	297	37	24	18	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5407131--5407321	101	1.9	100	85	4	260	36	26	17	19	1.94
5407356--5407402	21	2.2	21	80	0	58	21	25	17	36	1.94
5407398--5407505	20	5.4	20	91	2	173	37	25	19	17	1.93
5407390--5407510	40	3.0	40	87	3	174	38	23	18	20	1.94
5407089--5407511	20	20.9	19	69	14	133	34	25	17	22	1.96
5408365--5408418	24	2.2	24	93	0	90	20	18	20	40	1.91
5410834--5410927	20	4.7	20	85	2	127	36	24	21	18	1.95
5410919--5410994	33	2.3	34	93	2	127	44	19	22	13	1.85
5411025--5411074	20	2.5	20	86	0	73	34	22	22	22	1.97
5411247--5411283	14	2.6	14	86	0	56	48	21	0	29	1.50
5412625--5412716	42	2.2	42	82	3	105	21	17	35	25	1.95
5413192--5413276	20	4.2	20	95	0	143	38	20	20	21	1.93
5413325--5413368	19	2.3	19	84	0	52	13	13	27	45	1.81
5413334--5413420	19	4.8	19	73	13	67	9	13	25	51	1.70
5413408--5413435	14	2.0	14	100	0	56	7	28	21	42	1.79
5413538--5413914	94	4.0	93	96	1	655	47	18	12	21	1.82
5415606--5415662	20	2.9	19	84	7	78	38	21	24	15	1.92
5415597--5415676	40	2.0	40	85	2	108	41	18	25	15	1.89
5415672--5415793	20	6.5	19	76	11	92	12	18	19	49	1.79
5415699--5415790	40	2.3	40	85	7	116	13	19	18	48	1.80
5415703--5415793	20	4.5	21	81	10	102	13	17	18	50	1.78
5416352--5416588	20	11.7	20	78	8	221	19	17	24	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5416354--5416546	40	4.8	40	92	1	314	18	18	24	38	1.92
5416354--5416587	41	5.8	41	89	3	323	19	17	24	38	1.93
5416574--5416626	20	2.7	19	86	13	72	15	18	24	41	1.89
5416676--5416729	20	2.7	19	80	8	72	20	14	31	33	1.93
5418075--5418128	16	3.4	16	75	10	56	40	0	3	55	1.17
5418590--5418635	22	2.2	20	84	7	56	43	2	0	54	1.12
5418755--5418812	3	19.3	3	100	0	116	34	0	0	65	0.93
5419412--5419448	20	1.9	19	89	10	58	45	10	24	18	1.81
5420816--5420843	7	4.0	7	100	0	56	28	0	57	14	1.38
5429578--5429650	21	3.4	22	81	7	87	20	38	21	19	1.94
5433098--5433161	25	2.6	25	100	0	128	34	10	20	34	1.88
5435918--5435967	2	25.0	2	95	0	91	48	0	0	52	1.00
5437303--5437402	3	32.7	3	87	4	146	63	1	0	36	1.02
5437528--5438393	76	11.5	76	95	3	1556	35	21	20	22	1.96
5443771--5443800	11	2.7	11	100	0	60	0	10	0	90	0.47
5443765--5443808	17	2.5	17	85	10	54	0	15	0	84	0.63
5444095--5444150	2	28.0	2	100	0	112	50	0	0	50	1.00
5448428--5448471	17	2.7	15	86	10	52	72	0	0	27	0.85
5450513--5450612	3	32.7	3	87	4	146	63	1	0	36	1.02
5451570--5451634	33	1.9	35	90	6	107	32	9	20	38	1.84
5452601--5452688	45	1.9	46	93	2	151	28	18	26	27	1.98
5452708--5452746	20	2.0	20	89	0	60	20	15	33	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5455321--5455417	44	2.2	44	83	7	117	25	19	27	26	1.99
5460815--5460860	19	2.3	20	92	3	76	19	17	30	32	1.95
5465952--5466027	31	2.5	31	88	0	116	25	25	14	35	1.93
5467811--5467856	19	2.4	19	96	0	83	56	6	21	15	1.61
5467989--5468066	31	2.5	30	89	4	111	37	14	25	23	1.92
5473248--5473322	30	2.5	30	91	0	114	9	25	25	40	1.85
5473248--5473359	20	5.6	20	75	15	72	11	25	23	39	1.88
5477635--5477783	77	1.9	79	82	10	191	41	8	5	44	1.56
5481736--5481835	24	4.2	24	69	5	67	49	16	13	22	1.79
5483029--5483062	18	1.9	18	88	5	52	29	20	0	50	1.49
5489982--5490015	18	1.9	18	88	5	52	29	20	0	50	1.49
5499544--5499580	18	2.0	19	89	5	58	83	2	5	8	0.88
5504520--5504569	10	5.1	10	75	20	52	46	2	0	52	1.12
5511184--5511361	90	2.0	90	92	2	295	36	11	6	45	1.66
5513693--5513734	20	2.1	20	100	0	84	30	19	14	35	1.91
5514867--5514958	21	4.2	22	77	15	86	35	1	0	63	1.02
5514879--5514959	3	27.0	3	82	9	103	38	1	0	60	1.05
5515980--5516040	2	30.5	2	100	0	122	49	0	0	50	1.00
5516206--5516253	14	3.3	15	77	19	57	31	0	0	68	0.90
5516260--5516305	3	15.3	3	82	8	58	26	4	0	69	1.07
5516260--5516308	19	2.5	19	81	15	64	26	4	0	69	1.06
5516306--5516340	16	2.2	16	90	10	54	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5516405--5516618	113	1.9	111	82	6	263	37	7	8	45	1.64
5522287--5522368	8	9.9	8	81	12	60	79	2	18	0	0.84
5522300--5522360	4	15.0	4	80	16	72	77	0	22	0	0.78
5522300--5522370	12	6.0	11	81	16	72	77	0	22	0	0.77
5522304--5522368	21	3.3	21	81	14	77	78	0	21	0	0.75
5527066--5527120	22	2.5	22	85	5	76	34	12	14	38	1.84
5527508--5527945	114	3.9	114	96	0	806	41	14	16	27	1.87
5527881--5527985	40	2.6	40	92	1	165	54	8	20	17	1.68
5527767--5528098	154	2.2	153	89	1	493	43	12	19	24	1.85
5527922--5528341	113	3.7	113	86	5	569	37	13	20	27	1.91
5527654--5528214	268	2.1	267	89	1	847	41	13	19	26	1.87
5527930--5528341	227	1.8	228	88	2	632	36	14	20	28	1.92
5527540--5528324	381	2.1	380	89	1	1198	40	13	18	27	1.89
5528386--5528444	17	3.4	17	70	25	59	49	11	23	15	1.77
5528698--5528778	3	27.0	3	84	9	103	38	1	0	60	1.05
5529813--5529844	2	16.0	2	100	0	64	50	0	0	50	1.00
5530009--5530040	14	2.3	15	89	10	50	34	0	0	65	0.93
5529998--5530067	26	2.7	26	78	20	76	31	1	1	65	1.10
5529968--5530042	33	2.3	34	81	11	93	33	2	0	64	1.08
5530047--5530092	3	15.3	3	82	8	58	26	4	0	69	1.07
5530047--5530095	19	2.5	19	81	15	64	26	4	0	69	1.06
5530191--5530412	114	2.0	114	81	4	270	37	7	9	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5533716--5533757	19	2.2	19	95	0	75	40	14	28	16	1.88
5543365--5543405	21	2.0	21	90	0	64	29	31	12	26	1.92
5548301--5548708	201	2.0	204	98	1	795	35	11	18	34	1.87
5549901--5549986	29	3.2	29	64	29	82	39	13	8	38	1.75
5549905--5550004	50	2.0	50	100	0	200	36	14	10	40	1.79
5552208--5552249	20	2.1	21	91	8	70	35	16	4	42	1.69
5554117--5554193	20	4.2	20	73	21	69	33	9	25	31	1.87
5556263--5556302	21	1.9	21	85	10	55	62	0	17	20	1.33
5556407--5556467	28	2.2	28	84	0	77	34	19	26	19	1.96
5556414--5556471	28	2.1	28	90	0	89	37	17	22	22	1.93

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