genome.fa.s8245.2.7.7.80.10.50.1000.27.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  27  of  33  ( 3922 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)
5442492--5442529	19	2.0	19	89	0	58	28	18	28	23	1.98
5442512--5442672	66	2.5	65	85	7	202	26	18	23	31	1.98
5445314--5445379	23	3.0	22	73	6	71	28	19	22	28	1.98
5450548--5450585	19	2.0	19	89	0	58	28	18	28	23	1.98
5450568--5450729	67	2.5	66	84	7	197	25	18	24	31	1.97
5451301--5451439	6	22.3	6	69	20	56	48	1	1	48	1.19
5451270--5451411	50	3.0	46	76	18	130	47	2	0	49	1.18
5451294--5451416	44	2.6	48	81	10	146	48	0	0	49	1.12
5451322--5451408	16	5.2	18	71	19	73	47	0	1	51	1.08
5451402--5451540	31	4.2	35	72	21	93	47	2	6	43	1.44
5451394--5451506	31	3.5	30	77	17	120	50	2	4	42	1.36
5451401--5451447	24	1.9	25	82	4	60	55	4	2	38	1.31
5451297--5451537	66	3.8	64	76	17	198	47	2	4	46	1.33
5451532--5451575	18	2.6	17	86	13	56	47	6	0	45	1.29
5451594--5451672	36	2.2	36	93	0	131	44	8	3	43	1.53
5451651--5451701	15	3.3	15	71	15	50	50	3	3	41	1.39
5451712--5451759	21	2.3	21	88	0	69	45	4	6	43	1.48
5451818--5451918	2	51.0	2	92	2	168	49	0	0	49	1.07
5451920--5451993	37	2.1	36	84	5	96	39	10	8	41	1.70
5452122--5452212	45	2.0	45	86	6	128	32	8	7	50	1.62
5452205--5452252	2	24.0	2	81	8	53	43	0	6	50	1.27
5452205--5452252	23	2.1	23	96	0	87	43	0	6	50	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5452196--5452235	17	2.4	17	95	0	71	42	0	7	50	1.30
5452548--5452586	19	2.1	19	95	0	69	20	38	15	25	1.92
5452504--5452647	64	2.2	65	86	3	193	32	25	15	26	1.96
5452533--5452688	64	2.4	63	84	6	190	30	26	15	27	1.96
5456969--5457014	20	2.3	21	78	10	53	34	28	19	17	1.94
5464198--5464222	7	3.6	7	100	0	50	24	28	32	16	1.96
5464257--5464299	20	2.2	20	87	8	61	32	25	20	20	1.97
5464261--5464298	11	3.8	10	83	10	51	36	26	21	15	1.93
5474466--5474504	19	2.1	19	95	0	69	20	38	15	25	1.92
5474401--5474565	64	2.5	65	85	6	201	31	26	16	25	1.96
5475343--5475416	37	2.1	36	87	5	105	40	10	8	40	1.70
5475625--5475678	28	2.0	27	88	3	81	42	3	5	48	1.44
5475587--5475706	38	3.2	36	80	9	134	42	5	4	48	1.44
5475701--5475791	18	4.8	19	72	20	57	42	3	4	49	1.39
5475624--5475748	13	9.3	13	72	19	89	43	4	5	47	1.45
5475716--5475773	21	2.9	18	79	20	62	46	1	3	48	1.29
5475759--5475793	17	2.0	18	88	5	54	34	8	2	54	1.46
5475759--5475793	9	4.0	9	85	7	54	34	8	2	54	1.46
5485151--5485201	20	2.5	21	81	9	61	17	9	11	60	1.57
5485222--5485266	21	2.1	21	87	0	63	55	2	6	35	1.38
5486084--5486220	70	2.0	70	89	2	213	51	15	5	27	1.64
5488912--5489024	48	2.4	48	90	0	172	35	36	4	23	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5489619--5489650	12	2.7	12	90	0	55	59	31	0	9	1.29
5492727--5493969	647	1.9	639	93	2	2159	37	12	13	36	1.82
5498781--5498841	17	3.7	16	75	14	61	73	0	11	14	1.09
5498809--5498840	16	1.9	17	93	6	57	75	0	15	9	1.05
5498832--5498861	15	1.9	16	93	6	53	83	3	0	13	0.77
5502087--5502142	27	2.1	27	100	0	112	53	17	10	17	1.72
5502677--5502704	10	2.8	10	100	0	56	64	7	10	17	1.47
5502848--5503108	118	2.2	117	91	2	407	37	14	17	30	1.90
5503180--5503436	118	2.2	118	84	4	340	37	15	17	29	1.91
5506431--5506481	21	2.4	21	93	0	84	41	9	7	41	1.67
5509497--5509573	23	3.3	23	83	1	82	36	18	22	23	1.95
5509503--5509564	23	2.7	23	92	0	97	32	22	25	19	1.97
5509613--5509671	21	2.8	21	72	10	57	42	18	13	25	1.87
5516549--5516612	23	2.8	23	78	0	83	35	25	23	15	1.94
5520374--5520863	200	2.4	197	86	4	658	31	14	12	41	1.84
5520710--5520994	146	2.0	146	88	1	428	32	15	14	37	1.88
5521060--5521340	146	1.9	146	89	2	431	33	17	12	36	1.87
5520514--5521411	346	2.6	346	88	2	1306	32	15	13	38	1.86
5523347--5523472	66	1.9	66	91	0	207	25	39	1	33	1.65
5523338--5523484	66	2.2	66	85	0	204	24	40	2	32	1.67
5525828--5526185	183	2.0	183	93	1	619	27	15	13	43	1.83
5526012--5526350	163	2.1	163	94	1	590	26	15	13	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5535867--5535897	15	2.1	15	93	0	53	77	3	0	19	0.90
5537269--5537302	11	3.2	11	83	8	52	73	11	5	8	1.24
5538204--5538243	16	2.5	16	84	12	55	42	0	2	55	1.13
5538323--5538391	2	34.5	2	100	0	138	49	0	0	50	1.00
5540639--5540677	19	2.1	19	85	0	51	15	25	30	28	1.96
5540721--5540918	29	6.9	28	80	5	189	41	4	18	35	1.70
5540715--5540934	59	3.8	57	83	4	269	40	4	20	35	1.73
5542992--5543033	17	2.5	17	96	0	75	21	45	19	14	1.85
5542986--5543055	22	3.4	22	77	18	87	20	45	21	12	1.84
5542986--5543062	39	2.0	39	89	0	118	20	42	22	14	1.88
5543059--5543267	29	7.2	29	87	0	276	38	5	21	33	1.77
5544163--5544286	63	2.0	63	84	6	162	17	28	28	25	1.98
5544163--5544247	31	2.7	31	77	1	89	15	30	29	24	1.95
5549194--5549239	23	2.0	23	82	0	56	65	0	10	23	1.24
5549235--5549336	46	2.3	44	73	11	102	73	2	9	13	1.20
5557837--5558438	226	2.7	226	86	2	836	36	14	17	31	1.90
5558678--5558702	2	12.5	2	100	0	50	48	0	52	0	1.00
5558940--5558977	2	19.0	2	100	0	76	50	0	0	50	1.00
5560851--5560903	21	2.5	21	93	0	88	28	7	20	43	1.79
5560872--5561738	446	1.9	447	89	1	1328	30	14	13	41	1.85
5563203--5563266	24	2.6	25	85	4	87	51	10	3	34	1.53
5563209--5563247	18	2.2	18	85	0	51	53	10	2	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5565500--5565527	2	14.0	2	100	0	56	50	0	0	50	1.00
5568316--5568358	18	2.4	18	92	0	68	72	0	6	20	1.08
5572444--5572493	23	2.2	23	82	7	57	36	12	18	34	1.87
5572400--5572660	118	2.2	118	86	4	375	37	13	16	32	1.87
5572681--5573027	108	3.1	108	67	14	290	39	14	14	31	1.86
5572493--5573105	226	2.7	226	88	3	887	38	13	16	32	1.87
5573589--5573622	2	17.0	2	100	0	68	50	0	0	50	1.00
5575615--5575656	21	2.0	22	90	4	68	35	16	11	35	1.86
5575974--5576015	20	2.1	20	100	0	84	19	14	9	57	1.64
5577845--5577907	24	2.6	24	87	7	92	49	11	3	36	1.54
5580739--5581229	200	2.4	198	84	3	660	31	14	12	42	1.82
5581078--5581374	146	2.0	146	85	2	400	34	15	12	38	1.85
5580901--5581772	347	2.6	333	85	5	1081	32	15	12	39	1.86
5582183--5582292	54	2.0	54	94	0	193	39	14	20	25	1.91
5584030--5584083	12	4.5	12	95	0	90	1	42	0	55	1.10
5587866--5588111	57	4.4	56	85	5	320	36	8	17	37	1.81
5588285--5588692	68	6.0	68	86	0	543	30	14	25	29	1.95
5588728--5588802	22	3.3	21	66	20	53	50	6	20	22	1.71
5588725--5588852	46	2.8	45	86	2	175	46	6	21	25	1.74
5588825--5589047	45	5.0	45	88	0	322	33	12	24	29	1.92
5593233--5593283	24	2.1	24	82	7	59	50	1	1	45	1.24
5595879--5595917	20	2.0	20	84	0	51	35	17	10	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5596088--5596127	16	2.5	16	84	12	55	42	0	2	55	1.13
5602500--5602619	62	2.0	62	80	11	140	62	1	7	28	1.32
5602623--5602726	35	3.1	34	76	12	99	72	1	11	14	1.21
5611774--5612366	226	2.6	224	83	4	719	39	13	15	31	1.87
5612839--5612876	2	19.0	2	100	0	76	50	0	0	50	1.00
5617000--5617063	24	2.7	24	90	0	92	51	10	3	34	1.53
5617006--5617044	18	2.2	18	85	0	51	53	10	2	33	1.48
5616998--5617063	30	2.2	30	86	0	87	50	10	4	34	1.58
5618330--5618407	13	6.0	13	86	0	102	24	19	20	35	1.95
5618550--5618592	2	21.5	2	95	0	77	46	0	2	51	1.13

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