genome.fa.s1465.2.7.7.80.10.50.1000.48.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  48  of  55  ( 6520 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)
9655021--9655348	33	9.5	33	77	15	224	14	21	17	46	1.84
9655043--9655348	19	17.4	19	79	16	358	14	20	17	46	1.83
9655043--9655320	52	5.2	52	92	5	370	14	21	16	46	1.83
9657631--9657655	12	2.1	12	100	0	50	0	28	0	72	0.86
9657830--9657876	24	2.0	24	87	8	69	38	21	14	25	1.92
9658559--9658908	20	17.5	20	87	4	456	20	18	26	34	1.96
9658876--9658927	20	2.6	20	84	6	61	13	19	25	42	1.87
9660549--9660597	20	2.5	20	83	12	57	57	6	10	26	1.55
9661190--9661252	31	2.0	31	96	0	117	22	11	22	44	1.84
9661762--9661787	13	2.0	13	100	0	52	46	0	0	53	1.00
9662241--9662279	16	2.4	16	86	0	51	23	25	17	33	1.96
9662426--9662502	38	2.0	39	87	7	113	36	2	3	57	1.31
9662437--9662519	19	4.4	18	75	18	71	36	3	2	57	1.29
9662439--9662536	27	3.5	27	69	20	76	37	3	2	57	1.26
9662499--9662535	13	2.7	14	84	15	51	37	2	0	59	1.12
9665290--9665425	62	2.2	61	86	3	184	35	11	5	48	1.61
9665478--9665676	51	3.9	51	77	12	217	44	6	5	43	1.53
9665478--9665650	18	10.0	18	67	15	123	42	6	6	44	1.55
9665538--9665595	17	3.5	17	69	21	59	46	6	5	41	1.53
9665475--9665631	86	1.8	85	89	2	244	43	6	6	43	1.55
9665529--9665676	33	4.3	33	79	11	163	45	6	4	43	1.51
9665698--9665766	34	2.0	36	85	5	97	43	2	7	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9665720--9665847	2	59.0	2	67	20	53	46	4	7	42	1.52
9665725--9665766	9	4.4	9	78	21	50	45	0	7	47	1.30
9665720--9665792	20	3.6	20	81	9	78	46	2	5	45	1.40
9665771--9665900	31	4.4	31	69	26	109	42	6	10	40	1.65
9665776--9665898	33	4.1	33	71	25	126	42	6	9	41	1.64
9665804--9665846	22	2.0	22	86	9	61	48	6	4	39	1.51
9665877--9665953	18	3.9	18	76	18	82	41	7	9	41	1.65
9665877--9665956	42	1.9	42	94	0	142	41	7	8	42	1.64
9665877--9665972	42	2.3	42	87	7	133	40	9	8	41	1.67
9665981--9666065	33	2.7	32	83	8	102	48	4	7	40	1.51
9665871--9666025	18	8.6	17	68	16	57	41	7	7	43	1.62
9665999--9666065	33	2.1	32	91	2	107	50	4	5	38	1.47
9666051--9666101	13	4.2	12	79	13	52	58	0	3	37	1.16
9666023--9666109	23	3.5	25	80	19	103	58	1	3	36	1.22
9666068--9666109	6	7.2	6	89	5	68	64	0	0	35	0.94
9666230--9666330	20	5.2	18	66	20	51	42	3	6	46	1.49
9666148--9666330	39	4.7	39	72	14	92	44	3	4	46	1.43
9666287--9666377	28	3.3	28	79	10	89	40	5	7	46	1.56
9666327--9666384	27	2.1	27	80	0	62	41	6	6	44	1.58
9666369--9666480	2	55.5	2	77	11	113	48	3	1	46	1.30
9666481--9667160	215	3.2	214	89	4	993	29	11	8	50	1.69
9674419--9674470	3	18.3	3	76	11	56	59	0	1	38	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9674425--9674470	14	3.3	14	82	11	67	60	0	2	36	1.09
9674672--9675009	134	2.5	134	87	0	462	26	18	29	24	1.98
9675055--9675117	28	2.2	28	88	5	92	46	15	14	23	1.83
9675261--9675386	38	3.6	33	76	16	112	42	11	15	30	1.83
9675539--9675646	28	3.8	27	75	12	83	44	10	14	30	1.79
9675580--9675788	89	2.3	88	83	8	251	43	12	13	29	1.82
9675700--9675849	59	2.5	60	88	6	209	43	14	12	30	1.82
9675820--9675888	28	2.5	26	80	13	84	46	15	11	26	1.80
9675820--9675896	28	2.8	26	77	14	82	45	16	10	27	1.80
9676248--9676384	36	3.8	36	78	13	129	37	14	16	30	1.89
9676698--9676904	2	104.5	2	98	1	400	0	0	49	50	1.00
9678081--9678119	10	3.8	10	86	3	51	0	17	5	76	0.96
9678093--9678149	11	4.9	11	80	17	62	3	15	8	71	1.24
9678092--9678188	14	7.7	12	72	22	67	3	15	7	74	1.16
9678103--9678197	26	3.6	24	76	14	82	3	14	8	73	1.19
9678140--9678196	15	3.9	15	73	19	57	1	14	7	77	1.06
9678080--9678197	27	4.4	27	74	15	95	2	16	7	73	1.17
9678785--9678823	20	2.0	20	89	0	60	38	15	15	30	1.88
9681717--9681766	18	2.7	18	81	6	55	58	6	0	36	1.23
9682100--9682157	30	1.9	31	82	10	75	58	8	13	18	1.61
9688635--9688659	2	12.5	2	100	0	50	48	0	0	52	1.00
9688901--9689074	41	4.2	41	96	0	303	30	20	16	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9688949--9689056	21	5.2	20	64	4	63	27	23	16	32	1.96
9688935--9689096	20	7.9	20	64	4	90	30	21	17	30	1.96
9689092--9689149	19	3.0	19	87	7	64	37	25	18	17	1.93
9689103--9689149	19	2.4	19	89	3	76	38	23	19	19	1.93
9689645--9689686	20	2.2	20	91	4	68	11	16	21	50	1.77
9691449--9691498	21	2.4	21	80	6	57	18	12	32	38	1.87
9693347--9693383	14	2.6	14	95	0	65	32	0	21	45	1.52
9693304--9693449	80	1.9	76	83	8	188	32	0	17	50	1.51
9693559--9693610	20	2.6	20	96	0	95	42	23	17	17	1.89
9695361--9695421	26	2.3	26	97	0	113	29	14	37	18	1.90
9703493--9703595	31	3.3	32	73	17	92	20	11	30	37	1.88
9704617--9704669	26	2.1	26	89	3	81	52	5	20	20	1.66
9705684--9705737	16	3.4	16	79	5	56	16	12	22	48	1.80
9705684--9705784	32	3.2	31	74	2	85	18	11	21	47	1.81
9706429--9706485	26	2.2	26	96	0	105	24	10	12	52	1.70
9710527--9710554	7	4.0	7	100	0	56	14	28	14	42	1.84
9717947--9717979	16	2.0	17	88	5	50	48	0	3	48	1.17
9726782--9726822	16	2.6	16	88	3	57	36	12	21	29	1.90
9728442--9728491	21	2.4	21	93	0	91	24	18	32	26	1.97
9728442--9728502	21	3.0	20	90	4	88	26	19	27	26	1.99
9728542--9728587	20	2.3	20	88	3	67	36	21	6	34	1.80
9731258--9731310	21	2.5	22	93	6	99	64	7	3	24	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9732176--9732241	31	2.1	31	85	0	87	37	4	13	43	1.65
9735712--9735748	19	1.9	19	94	0	65	35	5	13	45	1.66
9735921--9735952	13	2.5	13	100	0	64	34	15	40	9	1.80
9737048--9737110	21	2.9	22	88	9	94	41	4	30	23	1.75
9737762--9737833	24	3.0	24	87	0	99	43	13	22	20	1.87
9744499--9744630	3	44.0	3	92	0	219	34	2	0	62	1.07
9757191--9757280	14	6.2	14	80	14	103	82	0	15	2	0.77
9757188--9757280	20	4.8	18	73	19	73	81	0	16	2	0.78
9757188--9757280	30	3.3	27	80	19	109	81	0	16	2	0.78
9757610--9757652	18	2.6	16	82	13	59	32	6	6	53	1.55
9757617--9757652	18	2.0	18	94	0	63	30	5	8	55	1.52
9758478--9759133	50	12.8	50	78	14	687	26	14	21	38	1.91
9758627--9758833	83	2.5	83	98	0	396	26	13	21	38	1.91
9759043--9759349	133	2.3	133	98	0	596	26	13	21	38	1.91
9759977--9760400	110	3.8	109	91	6	658	36	13	20	29	1.91
9760637--9760772	3	46.7	3	86	5	199	36	2	0	61	1.08
9765317--9765373	20	2.7	20	83	8	69	31	19	21	28	1.97
9767123--9767482	180	2.0	179	96	3	663	30	10	22	37	1.87
9772274--9772303	14	2.1	14	100	0	60	53	6	30	10	1.60
9772345--9772403	28	2.1	28	90	0	91	22	11	10	55	1.65
9772528--9772652	42	3.0	42	92	0	214	39	20	4	36	1.71
9780397--9780489	44	2.1	44	95	0	168	30	26	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9785178--9785227	22	2.3	22	82	0	64	34	14	8	44	1.74
9794089--9794146	29	1.9	31	82	6	75	37	13	1	46	1.54
9804832--9805132	146	2.1	146	95	0	539	28	19	15	36	1.92
9805376--9805413	15	2.5	16	83	8	53	26	0	7	65	1.19
9805491--9805537	22	2.1	22	92	0	76	44	4	21	29	1.71
9808389--9808427	20	1.9	21	85	15	55	20	0	33	46	1.51
9808792--9808838	15	2.8	18	72	21	57	40	2	4	53	1.32
9822374--9822458	41	2.1	40	84	2	107	42	10	9	37	1.72
9826704--9826774	36	2.0	35	94	2	124	40	25	9	23	1.85
9830706--9830737	12	2.4	14	90	10	50	37	34	0	28	1.57

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