genome.fa.s8620.2.7.7.80.10.50.1000.26.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  26  of  64  ( 7674 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)
5117688--5117867	40	4.5	40	85	0	216	25	18	21	34	1.96
5117937--5118160	93	2.4	93	82	1	252	34	16	18	30	1.93
5118128--5118301	37	4.8	36	90	6	246	42	16	20	20	1.89
5118490--5118531	14	3.1	14	86	3	50	40	4	0	54	1.21
5119657--5119686	2	15.0	2	100	0	60	50	0	0	50	1.00
5120690--5120812	63	2.0	63	85	3	167	40	5	7	46	1.55
5126479--5126715	131	1.8	131	83	5	318	36	9	13	40	1.77
5132821--5132868	24	2.0	24	91	0	78	31	12	16	39	1.86
5136672--5137073	45	8.8	45	84	4	484	26	20	7	45	1.78
5136908--5136975	22	3.1	21	67	19	57	26	22	5	45	1.75
5137268--5137494	55	4.1	55	78	7	196	31	18	17	32	1.94
5137293--5137494	110	1.8	109	81	5	246	30	18	16	33	1.94
5138421--5138657	131	1.8	131	83	5	318	36	9	13	40	1.77
5139314--5139348	14	2.5	14	100	0	70	25	17	17	40	1.90
5142179--5142212	17	1.9	18	94	5	61	50	0	2	47	1.16
5148370--5148410	21	1.9	22	85	5	57	36	2	9	51	1.48
5152536--5152570	17	2.1	17	88	0	52	34	14	17	34	1.90
5153145--5153202	30	2.0	30	82	3	73	25	20	6	46	1.75
5153195--5153224	13	2.2	14	94	5	53	20	10	13	56	1.65
5156823--5156847	13	1.9	13	100	0	50	12	8	16	64	1.49
5159885--5159926	21	2.0	21	85	0	57	16	21	9	52	1.72
5162464--5162568	50	2.1	50	87	3	149	17	30	27	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5162772--5162812	18	2.3	18	91	4	66	29	4	2	63	1.28
5162874--5163084	111	1.9	111	96	0	386	36	8	10	45	1.69
5164888--5164925	3	12.7	3	94	0	67	34	28	34	2	1.71
5165099--5165133	18	1.9	18	88	0	52	25	0	5	68	1.11
5165044--5165142	52	2.0	49	82	9	119	25	6	5	63	1.38
5176972--5177253	141	2.0	141	100	0	564	21	22	14	41	1.90
5181150--5181210	21	2.9	21	97	0	113	29	8	16	45	1.76
5181323--5181363	15	2.7	15	80	0	55	17	46	24	12	1.82
5181512--5181852	168	2.0	171	96	3	636	31	11	18	37	1.87
5185847--5185889	22	2.0	22	100	0	86	51	13	0	34	1.42
5185849--5185897	22	2.2	22	88	3	71	55	14	0	30	1.40
5185837--5187077	54	23.0	54	72	17	783	52	13	0	33	1.42
5185852--5186662	80	9.9	80	82	13	811	52	14	0	32	1.42
5185980--5186097	22	5.0	22	71	20	103	52	15	0	32	1.43
5185869--5186954	79	13.3	83	83	11	823	52	14	0	32	1.42
5186034--5186106	22	3.2	22	71	21	69	54	17	0	27	1.43
5186077--5187051	32	33.3	32	67	24	438	53	13	0	33	1.42
5186109--5186151	22	2.0	22	90	0	68	53	9	0	37	1.33
5186110--5186159	22	2.2	22	85	3	64	52	12	0	36	1.39
5186077--5187008	80	11.2	87	78	11	427	53	13	0	32	1.42
5186165--5186213	22	2.2	22	85	3	62	57	12	0	30	1.36
5186397--5186900	26	18.6	26	66	26	148	53	15	0	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5186474--5186548	22	3.2	23	75	17	82	54	17	0	28	1.43
5186642--5186684	22	2.0	22	100	0	86	51	13	0	34	1.42
5186644--5186692	22	2.2	22	88	3	71	55	14	0	30	1.40
5186445--5186791	144	2.5	144	90	8	541	53	14	0	31	1.42
5186924--5186967	22	2.0	22	82	8	54	54	4	0	40	1.21
5186934--5186976	22	2.0	22	95	0	77	51	11	0	37	1.39
5186936--5186984	22	2.2	22	85	3	62	55	12	0	32	1.37
5186988--5187088	22	4.5	22	71	7	94	50	10	0	38	1.38
5187033--5187149	15	7.5	15	76	15	112	51	4	0	44	1.21
5187079--5187177	44	2.3	42	82	3	117	48	3	0	48	1.17
5187076--5187149	29	2.5	30	91	2	114	50	1	0	48	1.09
5189453--5189483	3	10.3	3	100	0	62	35	0	0	64	0.94
5190108--5190160	20	2.7	20	100	0	106	37	20	20	20	1.94
5190370--5190435	22	3.0	22	93	0	114	25	39	13	21	1.90
5190760--5190832	33	2.2	34	82	7	87	13	21	26	38	1.91
5190807--5190852	20	2.3	20	88	0	65	19	17	26	36	1.94
5190820--5190875	20	2.8	20	88	0	76	10	14	23	51	1.73
5192845--5192913	20	3.5	20	85	0	93	36	21	20	21	1.95
5192778--5192932	34	4.4	34	70	13	125	43	19	19	18	1.89
5192956--5193014	20	3.0	20	89	0	91	20	20	22	37	1.95
5193500--5193604	21	5.0	21	72	3	86	20	36	19	23	1.95
5193525--5193607	42	2.0	42	83	4	105	21	38	19	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5195086--5195139	14	3.5	14	73	22	54	11	24	20	44	1.83
5195064--5195159	33	2.8	33	90	3	138	13	22	19	43	1.86
5195131--5195244	20	5.7	20	91	2	158	18	20	23	37	1.94
5195132--5195244	60	1.9	60	92	3	192	18	19	23	38	1.93
5195470--5195513	22	2.0	22	100	0	88	27	27	22	22	1.99
5198571--5198677	20	5.3	20	82	6	128	26	18	25	29	1.98
5198571--5198677	40	2.7	40	84	8	146	26	18	25	29	1.98
5198664--5198756	20	4.7	20	94	0	159	19	18	21	40	1.91
5198753--5198793	21	2.0	21	90	0	64	39	19	24	17	1.92
5199020--5199094	34	2.2	34	97	2	141	36	4	22	37	1.73
5199025--5199081	19	3.2	19	61	19	50	29	3	26	40	1.73
5199341--5199384	21	2.1	21	83	8	54	47	25	0	27	1.52
5207237--5207476	120	2.0	120	100	0	480	39	16	12	31	1.86
5210864--5211017	77	2.0	77	100	0	308	33	16	6	42	1.74
5219353--5219487	65	2.1	65	94	0	234	26	31	21	20	1.98
5220536--5220670	65	2.1	65	87	2	191	28	22	17	31	1.97
5220537--5220690	65	2.4	65	84	4	168	29	22	16	31	1.96
5231026--5231064	21	1.9	20	84	5	51	28	15	17	38	1.91
5233454--5233478	13	1.9	13	100	0	50	52	16	8	24	1.70
5235265--5235337	20	3.5	20	74	9	58	28	12	20	38	1.89
5238427--5238519	27	3.4	27	83	0	114	30	12	15	41	1.84
5238498--5238564	28	2.4	28	97	0	125	35	8	11	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5242188--5242240	21	2.5	21	100	0	106	30	20	22	26	1.98
5244055--5244102	19	2.5	19	80	12	53	50	4	10	35	1.56
5248575--5248727	24	6.3	24	87	5	227	39	24	15	21	1.91
5248575--5248727	49	3.1	49	91	4	247	39	24	15	21	1.91
5248575--5248727	73	2.1	73	91	4	247	39	24	15	21	1.91
5252047--5252145	3	34.0	3	75	13	91	29	4	1	65	1.17
5252047--5252145	14	7.7	13	82	9	107	29	4	1	65	1.17
5252048--5252138	41	2.2	41	84	3	112	29	4	1	64	1.20
5253497--5253521	4	6.2	4	100	0	50	24	0	0	76	0.80
5253697--5253744	16	3.1	15	78	18	53	33	2	0	64	1.05
5256720--5256760	8	5.9	7	81	18	50	17	17	9	56	1.67
5261942--5262146	54	3.9	54	79	7	242	39	14	20	25	1.90
5262546--5262626	38	2.2	38	97	2	155	33	14	11	40	1.82
5262512--5262634	22	5.9	22	78	12	134	35	13	12	39	1.81
5263305--5264253	116	8.2	117	91	1	1493	31	21	20	26	1.98
5263848--5263910	20	3.0	22	64	17	60	39	23	19	17	1.92
5264217--5264274	21	2.8	21	86	2	73	37	27	15	18	1.92
5264649--5264740	3	32.0	3	75	12	86	30	3	1	65	1.16
5264671--5264740	14	5.0	13	84	6	68	32	2	1	62	1.18
5264677--5264740	17	3.8	16	78	19	67	31	3	1	64	1.19
5264649--5264738	20	4.5	20	76	15	89	30	3	1	65	1.16
5270297--5270341	20	2.2	20	96	0	81	28	15	28	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5273550--5273591	19	2.3	18	80	8	50	52	0	2	45	1.13
5273821--5273869	24	2.0	25	84	4	64	53	0	2	44	1.12
5272987--5273932	281	3.4	278	89	7	1468	48	4	7	39	1.52
5274991--5275042	2	26.0	2	100	0	104	50	0	0	50	1.00
5277805--5277875	23	3.1	24	84	11	87	29	21	21	28	1.98
5280018--5280056	17	2.2	18	86	13	55	56	0	2	41	1.13
5280618--5280660	11	3.9	11	96	0	77	37	11	18	32	1.87
5280607--5280662	11	5.1	11	91	0	76	35	14	19	30	1.91
5280930--5280961	15	2.1	15	100	0	64	75	12	6	6	1.19
5289573--5289625	21	2.5	21	96	0	97	20	24	16	37	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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64