genome.fa.s8105.2.7.7.80.10.50.1000.26.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  26  of  30  ( 3521 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)
4975895--4975946	20	2.5	21	87	3	70	21	23	17	38	1.93
4975936--4975988	21	2.5	22	81	6	74	33	18	26	20	1.96
4980338--4980384	17	2.8	17	90	3	69	31	17	19	31	1.94
4982900--4982965	20	3.3	19	85	8	87	36	25	18	19	1.94
4982879--4982965	40	2.2	40	84	12	108	35	24	18	21	1.95
4982986--4983095	57	1.9	57	87	7	161	30	14	19	36	1.91
4983067--4983115	20	2.5	20	87	9	73	24	14	28	32	1.94
4983013--4983177	77	2.1	77	94	0	285	27	13	21	36	1.92
4983088--4983233	61	2.5	59	85	5	188	27	15	20	36	1.92
4983030--4983152	37	3.2	37	65	15	97	25	14	23	36	1.93
4983120--4983238	61	2.0	61	93	0	202	28	14	18	38	1.90
4982986--4983315	138	2.4	136	90	2	502	28	14	19	37	1.91
4983207--4983253	20	2.3	20	81	0	58	29	14	21	34	1.93
4983145--4983407	77	3.4	77	89	2	382	27	14	20	36	1.92
4983245--4983364	37	3.2	37	63	19	93	25	15	22	37	1.93
4983283--4983321	20	2.0	20	89	0	60	30	15	17	35	1.91
4983360--4983427	20	3.4	20	95	0	118	27	14	23	33	1.94
4983277--4983526	97	2.6	97	83	6	301	27	16	20	35	1.94
4983459--4983528	20	3.5	20	74	3	77	22	18	21	37	1.94
4984466--4984499	17	1.9	18	88	5	52	20	8	0	70	1.13
4986236--4986361	64	2.0	64	81	12	152	28	7	22	41	1.82
4986558--4986591	2	16.0	2	88	11	50	47	5	0	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4987314--4987520	30	6.9	30	79	7	204	40	18	14	26	1.89
4987314--4987520	91	2.3	90	85	1	279	40	18	14	26	1.89
4988939--4988986	20	2.5	20	89	3	80	33	0	25	41	1.55
4990458--4990504	23	2.0	23	100	0	94	36	8	25	29	1.86
4992908--4992941	2	17.0	2	100	0	68	50	0	0	50	1.00
4993127--4993220	38	2.3	40	85	7	120	29	9	15	44	1.79
4993184--4993244	24	2.5	24	86	7	72	29	8	19	42	1.80
4993196--4993244	24	2.0	24	92	7	82	30	10	22	36	1.87
4993158--4993285	62	2.0	63	87	4	186	27	9	21	41	1.84
4993209--4993288	41	2.1	38	88	9	117	26	10	22	41	1.85
4994054--4994140	29	3.0	29	73	18	72	48	6	10	34	1.64
4995659--4996012	54	6.6	54	93	0	582	28	20	19	31	1.97
4996537--4996588	20	2.6	20	93	0	86	17	30	17	34	1.93
5002693--5003141	54	8.3	54	89	1	684	29	19	19	31	1.96
5003459--5003516	20	2.7	22	81	5	66	31	25	13	29	1.94
5003682--5003756	20	3.8	20	94	0	132	22	32	13	32	1.93
5008065--5008105	2	20.5	2	100	0	82	48	0	0	51	1.00
5012381--5012420	17	2.4	17	86	0	53	42	15	5	37	1.68
5016246--5016283	20	1.9	20	94	0	67	31	34	15	18	1.92
5024958--5024995	20	1.9	20	94	0	67	31	34	15	18	1.92
5025023--5025075	20	2.7	20	91	2	81	32	28	18	20	1.97
5029511--5029553	17	2.5	17	81	7	52	39	13	4	41	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5029885--5029944	30	2.0	31	83	3	77	26	8	8	56	1.57
5034845--5034891	20	2.4	19	82	6	58	46	6	12	34	1.67
5037619--5037698	21	3.9	22	80	20	102	43	0	0	56	0.99
5037619--5037687	3	23.3	3	77	14	72	42	0	0	57	0.98
5039070--5039102	16	2.1	16	88	11	50	39	0	0	60	0.97
5039108--5039141	17	2.0	17	88	0	50	32	5	0	61	1.20
5039144--5039173	2	15.0	2	100	0	60	50	50	0	0	1.00
5040067--5040130	20	3.4	18	84	6	65	25	3	1	70	1.11
5040067--5040131	9	6.9	9	73	13	51	24	3	1	70	1.10
5045032--5045108	26	3.0	26	84	3	95	75	7	14	2	1.13
5045065--5045126	7	9.3	7	79	13	69	85	0	14	0	0.60
5045065--5045126	17	3.5	17	89	8	81	85	0	14	0	0.60
5045069--5045126	24	2.4	25	94	2	100	86	0	13	0	0.58
5047183--5047404	114	1.9	114	88	0	336	34	15	19	30	1.93
5048337--5048509	74	2.3	76	81	4	199	32	15	20	31	1.94
5049393--5049547	54	2.9	55	91	1	251	37	14	23	23	1.93
5049914--5049968	22	2.5	22	85	5	76	36	10	12	40	1.79
5050643--5051015	76	4.9	76	98	0	719	22	20	22	34	1.97
5051188--5051267	21	3.9	22	80	20	102	43	0	0	56	0.99
5051188--5051256	3	23.3	3	77	14	72	42	0	0	57	0.98
5052657--5052689	16	2.1	16	100	0	66	39	0	0	60	0.97
5052695--5052728	17	2.0	17	88	11	52	29	5	0	64	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5052742--5052787	2	23.0	2	100	0	92	50	0	0	50	1.00
5052875--5052945	33	2.2	32	85	7	90	46	1	1	50	1.18
5057640--5057698	21	2.8	21	81	0	73	8	28	38	23	1.84
5058952--5058976	2	12.5	2	100	0	50	52	48	0	0	1.00
5070627--5070705	12	6.7	12	85	1	106	25	37	0	36	1.56
5073491--5073527	2	18.5	2	100	0	74	48	0	0	51	1.00
5073672--5073731	29	2.1	29	84	6	77	21	5	5	68	1.29
5074824--5074857	16	2.1	16	94	0	59	17	2	0	79	0.86
5078814--5078842	2	14.5	2	100	0	58	48	0	0	51	1.00
5078927--5078977	12	4.2	12	74	18	52	31	3	1	62	1.24
5080273--5080318	18	2.5	20	79	13	62	32	6	23	36	1.81
5083832--5083887	4	14.5	4	77	20	57	78	0	1	19	0.84
5083821--5083884	19	3.3	18	75	16	58	81	1	1	15	0.85
5083822--5083887	7	9.3	7	74	12	55	80	1	1	16	0.87
5083832--5083887	23	2.4	23	85	11	71	78	0	1	19	0.84
5084002--5084050	2	24.5	2	95	0	89	48	2	0	48	1.12
5083892--5084151	133	2.0	129	80	13	296	45	6	3	44	1.46
5083932--5084341	37	11.3	37	72	16	253	42	7	3	46	1.48
5084060--5084122	27	2.3	27	89	8	92	44	7	1	46	1.42
5089270--5089338	35	2.0	35	91	0	111	56	7	17	18	1.63
5089284--5089338	17	3.2	17	67	23	51	60	5	16	18	1.55
5095417--5095617	95	2.1	95	83	3	244	36	18	19	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5095957--5096248	54	5.4	54	85	2	381	29	18	19	32	1.96
5102649--5103058	54	7.6	54	86	0	532	27	19	20	33	1.96
5105116--5105152	15	2.5	15	90	0	56	70	2	13	13	1.28
5106434--5106464	16	2.0	15	93	6	53	77	0	6	16	0.97
5106441--5106487	7	6.4	7	82	7	58	70	0	4	25	1.05
5106505--5106552	16	2.8	18	82	14	50	50	8	4	37	1.52
5106528--5106606	26	3.0	27	75	12	67	45	3	2	48	1.34
5106574--5106621	2	25.5	2	87	12	75	47	0	0	52	1.00
5106568--5106622	23	2.3	23	90	6	83	45	0	0	54	0.99
5106601--5106913	38	8.4	37	83	7	341	43	8	2	45	1.49
5107553--5108737	594	2.0	592	96	2	2184	26	12	18	42	1.86
5114751--5114859	53	2.1	53	100	0	200	43	22	9	25	1.82
5115823--5115851	13	2.1	14	93	6	51	24	24	6	44	1.77
5116887--5116932	21	2.1	22	84	11	60	28	13	4	54	1.57
5119462--5119531	33	2.2	33	97	2	133	34	2	28	34	1.72
5124104--5124133	14	2.1	14	100	0	60	33	10	36	20	1.86
5144395--5144438	18	2.4	18	100	0	88	9	59	11	20	1.59
5144971--5144995	12	2.1	12	100	0	50	36	8	24	32	1.84
5156936--5156964	12	2.4	12	100	0	58	17	0	0	82	0.66
5164026--5164196	56	2.9	59	84	8	242	28	18	24	29	1.98
5164021--5164205	59	3.2	59	83	9	245	28	17	24	29	1.97
5164557--5164631	36	2.1	36	100	0	150	44	17	16	22	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5175783--5175811	15	2.0	15	93	6	51	55	6	24	13	1.63
5175975--5176026	22	2.4	22	100	0	104	50	0	7	42	1.31
5178364--5178418	20	2.8	20	80	0	65	43	16	14	25	1.86
5182339--5182410	24	3.0	24	95	0	135	19	12	4	63	1.44
5191301--5191548	134	1.9	134	86	1	354	22	18	30	27	1.98
5191308--5191588	134	2.1	134	83	2	350	22	18	31	27	1.97
5191968--5192033	30	2.2	29	78	7	71	50	10	10	28	1.70
5192054--5192121	30	2.3	30	85	5	86	35	13	8	42	1.75
5192000--5192324	108	3.3	92	76	13	222	43	15	9	31	1.79
5192193--5192344	29	5.6	28	71	19	99	46	15	11	26	1.80

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