genome.fa.s8747.2.7.7.80.10.50.1000.28.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  28  of  51  ( 6054 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)
7336583--7337489	2	462.0	2	63	21	151	47	3	5	43	1.42
7336693--7336762	29	2.3	29	80	11	79	44	2	2	50	1.31
7336735--7336781	9	5.6	8	78	16	51	38	2	2	57	1.23
7336722--7336841	17	6.9	17	71	17	68	42	4	4	49	1.41
7336930--7337060	57	2.3	56	84	12	178	50	2	2	45	1.27
7338361--7338425	32	2.0	32	100	0	130	40	6	26	27	1.80
7338767--7338810	24	1.9	23	86	9	63	29	9	2	59	1.41
7341428--7341667	120	2.0	119	99	0	471	32	13	30	23	1.93
7349513--7349562	21	2.5	20	84	12	59	78	6	14	2	1.03
7350769--7351074	64	4.8	64	87	4	438	32	24	20	22	1.98
7350768--7351074	127	2.4	129	87	2	442	32	24	20	22	1.98
7350768--7351117	127	2.8	129	82	5	435	32	25	19	22	1.98
7352566--7352593	10	2.8	10	100	0	56	67	10	10	10	1.42
7353304--7353371	35	1.9	36	88	8	104	19	5	27	47	1.72
7353494--7353528	4	8.8	4	87	0	52	28	2	0	68	1.04
7353937--7353991	22	2.5	22	88	5	85	54	0	9	36	1.32
7353941--7354061	62	2.0	62	82	9	149	48	3	7	40	1.47
7355967--7356006	2	20.0	2	100	0	80	50	0	0	50	1.00
7357988--7358043	9	6.2	9	73	8	51	21	1	0	76	0.87
7357994--7358041	22	2.3	21	86	10	64	20	2	0	77	0.88
7357985--7358030	24	1.9	24	82	8	58	21	2	0	76	0.90
7369994--7370037	8	5.2	8	82	17	54	75	0	13	11	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7370003--7370037	18	1.9	18	100	0	70	77	0	11	11	1.00
7370909--7371245	136	2.5	136	84	4	420	34	17	23	24	1.96
7371392--7371447	17	3.1	17	68	22	51	50	12	19	17	1.78
7371282--7371546	89	2.9	90	89	4	374	39	14	21	24	1.91
7373184--7373232	22	2.3	21	89	6	73	20	2	0	77	0.87
7373190--7373228	17	2.2	18	86	4	53	20	2	0	76	0.90
7380423--7380740	161	2.0	161	94	0	555	32	13	20	33	1.91
7381927--7381993	21	3.2	21	89	4	82	16	23	17	41	1.89
7381990--7382037	20	2.4	20	89	6	71	37	27	18	16	1.92
7382005--7382045	20	2.0	20	90	0	64	34	21	21	21	1.97
7382892--7382950	24	2.5	24	88	0	91	25	20	18	35	1.95
7385065--7385103	15	2.5	15	87	8	51	12	33	30	23	1.92
7385834--7385922	20	4.4	20	88	2	135	34	24	22	17	1.96
7385955--7386050	33	2.9	34	88	3	140	13	23	20	41	1.88
7386022--7386074	20	2.7	20	100	0	106	15	24	26	33	1.95
7386172--7386208	14	2.6	14	86	0	56	48	21	0	29	1.50
7387578--7387670	42	2.2	42	79	7	100	23	16	38	21	1.92
7388158--7388216	20	3.0	20	100	0	118	40	20	20	18	1.91
7388251--7388294	19	2.3	19	88	0	61	11	18	27	43	1.84
7388266--7388361	33	2.9	33	87	0	129	8	20	23	46	1.78
7388261--7388399	19	7.9	18	72	20	80	10	20	23	46	1.80
7388298--7388376	17	4.6	17	74	17	74	10	21	22	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7388464--7388841	94	4.1	94	94	2	629	47	18	11	21	1.81
7390471--7390522	20	2.6	19	80	19	70	40	21	25	13	1.89
7390462--7390559	40	2.7	36	75	15	103	44	18	22	14	1.85
7390591--7390685	40	2.4	41	85	7	124	11	20	17	50	1.77
7390598--7390688	20	4.6	20	86	4	112	12	17	18	51	1.75
7391239--7391452	20	10.6	20	78	6	216	19	18	25	36	1.94
7391241--7391452	41	5.2	41	90	1	320	19	18	25	37	1.94
7391465--7391513	20	2.5	20	90	6	73	14	16	24	44	1.84
7391238--7391513	81	3.4	79	77	7	252	19	18	24	37	1.94
7391481--7391574	42	2.3	42	76	9	95	21	21	22	35	1.96
7400577--7400647	35	2.0	35	100	0	142	28	12	25	33	1.92
7401977--7402026	18	3.2	18	64	35	51	36	4	10	50	1.55
7401971--7402039	29	2.4	31	85	14	110	33	5	8	52	1.56
7402698--7402834	40	3.4	39	69	11	105	35	19	12	32	1.89
7410160--7410217	21	2.8	21	89	2	82	20	6	18	53	1.67
7411829--7411856	14	2.0	14	100	0	56	64	0	0	35	0.94
7418921--7419020	49	2.0	49	94	0	173	22	34	4	40	1.72
7419731--7419774	23	2.0	22	86	4	61	20	2	40	36	1.65
7426200--7426249	21	2.4	21	93	0	82	18	16	6	60	1.55
7432053--7432357	54	5.6	54	86	1	335	26	17	20	35	1.94
7432053--7432366	108	2.9	108	83	0	369	27	17	19	35	1.94
7432685--7432749	20	3.1	21	89	6	96	18	33	13	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7435734--7435920	95	2.0	95	96	2	349	31	24	16	28	1.96
7437899--7438045	73	2.0	73	100	0	294	31	12	23	32	1.92
7439403--7439451	20	2.5	20	96	0	89	38	14	26	20	1.91
7444305--7444341	17	2.2	17	100	0	74	48	16	18	16	1.81
7466919--7466957	17	2.2	18	86	4	53	53	0	2	43	1.14
7467880--7467934	28	1.9	28	85	3	74	27	3	3	65	1.26
7481551--7481601	19	2.6	19	87	3	66	31	9	29	29	1.89
7481575--7481612	19	2.0	19	89	0	58	28	7	34	28	1.85
7483030--7483139	40	2.8	40	95	0	193	32	30	16	20	1.95
7489179--7489267	30	3.0	30	81	6	92	31	17	7	42	1.78
7491117--7491194	40	2.0	40	92	0	129	32	25	14	28	1.94
7494637--7494767	39	3.4	39	80	6	140	35	9	31	23	1.88
7494637--7494728	38	2.4	38	87	3	121	38	8	28	25	1.85
7495999--7496032	6	5.5	6	86	6	50	20	2	0	76	0.92
7496032--7496075	2	22.5	2	95	4	81	47	0	0	52	1.00
7497566--7497950	145	2.7	143	94	1	653	37	5	7	48	1.56
7501467--7501515	20	2.5	20	96	0	89	51	0	20	28	1.48
7504463--7504502	18	2.2	18	86	0	53	32	12	30	25	1.92
7509860--7509917	27	2.1	27	84	6	73	27	12	13	46	1.79
7510338--7510378	3	13.7	3	100	0	82	31	0	0	68	0.90
7510900--7510952	15	3.6	15	76	19	58	24	22	26	26	2.00
7510886--7510952	29	2.3	29	87	5	91	23	20	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7510886--7510952	14	4.6	15	78	12	68	23	20	28	26	1.99
7511574--7511601	14	2.0	14	100	0	56	50	0	21	28	1.49
7513019--7513094	36	2.1	36	97	0	143	43	14	10	31	1.79
7517562--7517591	15	2.0	15	100	0	60	13	46	26	13	1.80
7518017--7518092	36	2.1	36	97	0	143	43	14	10	31	1.79
7520922--7521142	45	4.9	45	92	2	374	38	7	23	31	1.82
7520922--7521142	89	2.5	90	91	2	374	38	7	23	31	1.82
7523789--7523814	3	8.7	3	100	0	52	30	0	0	69	0.89
7530160--7530201	6	7.0	6	94	0	57	26	33	23	16	1.96
7530160--7530201	12	3.5	12	90	0	66	26	33	23	16	1.96
7534355--7534448	2	49.0	2	72	12	63	45	6	2	45	1.40
7536219--7537168	4	240.0	4	95	2	1679	49	24	0	25	1.56
7536714--7536790	10	7.7	10	81	8	68	49	16	1	32	1.54
7537335--7537385	20	2.5	21	84	12	70	37	11	19	31	1.88
7543055--7543100	19	2.4	18	86	10	65	76	2	0	21	0.90
7543019--7543096	26	2.9	28	76	12	76	73	3	0	23	1.00
7544430--7544471	10	3.9	11	87	6	52	2	19	52	26	1.58
7544597--7544772	20	8.6	20	75	3	172	39	23	21	16	1.92
7544594--7544751	41	3.9	41	95	0	289	37	24	20	17	1.93
7544617--7544731	21	5.6	20	72	4	104	34	25	20	20	1.96
7544597--7544772	61	2.9	61	76	3	156	39	23	21	16	1.92
7544748--7544802	28	2.0	28	82	7	67	34	16	29	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7547303--7547366	6	11.3	6	75	24	68	50	0	0	50	1.00
7547274--7547360	29	2.5	36	68	31	89	49	1	0	49	1.08
7547296--7547395	50	2.0	52	86	7	143	47	0	2	51	1.12
7547381--7547443	31	2.0	31	90	0	99	53	3	1	41	1.26
7547388--7547434	24	1.9	25	82	4	60	55	4	2	38	1.31
7547424--7547491	21	3.2	21	80	2	82	47	4	2	45	1.38
7547358--7547565	88	2.4	88	80	10	221	48	4	4	42	1.44
7547302--7547586	110	2.6	108	78	11	242	49	3	4	43	1.39
7547505--7547546	22	2.0	21	90	9	68	50	9	4	35	1.56
7547532--7547586	21	2.6	21	79	0	74	50	5	7	36	1.53

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