genome.fa.s8356.2.7.7.80.10.50.1000.37.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  37  of  56  ( 6656 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)
8218210--8218252	20	2.2	20	86	0	59	30	13	20	34	1.92
8218482--8218536	27	2.0	27	92	0	92	29	25	23	21	1.99
8226882--8226924	20	2.2	20	86	0	59	30	11	20	37	1.89
8227154--8227208	27	2.0	27	92	0	92	29	25	23	21	1.99
8229885--8230066	84	2.2	82	95	2	328	28	1	13	56	1.46
8229885--8230098	84	2.6	81	87	9	308	28	2	13	56	1.50
8230801--8230862	19	3.4	19	76	17	60	22	9	0	67	1.19
8230822--8230846	12	2.1	12	100	0	50	32	0	0	68	0.90
8230901--8230962	20	3.2	20	72	20	60	24	3	0	72	0.99
8232058--8232173	2	58.5	2	80	1	126	0	59	0	40	0.97
8234042--8234091	20	2.5	21	81	12	61	36	0	22	42	1.54
8235116--8235240	65	1.9	64	83	1	160	30	16	23	29	1.96
8235920--8235964	16	2.8	16	77	9	56	46	31	0	22	1.52
8237854--8237947	23	4.5	21	72	18	72	28	24	23	23	1.99
8238173--8238205	3	11.3	3	93	6	59	30	0	0	69	0.88
8243633--8243788	64	2.4	65	85	5	201	30	17	22	29	1.97
8246894--8246952	22	2.7	22	97	0	109	44	18	18	18	1.88
8252298--8252337	21	1.9	21	89	0	62	27	30	20	22	1.98
8252741--8252803	20	3.2	20	93	0	99	30	25	1	42	1.64
8252781--8252956	46	3.9	45	89	2	255	32	19	7	39	1.81
8253066--8253180	61	1.9	61	85	3	160	31	26	17	24	1.97
8253384--8253442	31	1.9	31	86	6	84	42	15	6	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8261614--8261660	18	2.6	18	82	0	58	12	38	6	42	1.69
8261613--8261657	12	3.8	12	82	5	56	13	35	8	42	1.75
8266256--8266293	9	4.2	9	87	12	60	52	18	2	26	1.58
8272542--8272586	20	2.2	19	81	14	54	64	0	6	28	1.19
8272729--8272989	117	2.2	118	82	2	305	24	22	12	40	1.88
8272729--8273019	117	2.5	118	79	4	288	24	21	12	41	1.87
8273551--8273586	17	2.3	15	90	9	54	11	19	0	69	1.18
8282737--8282810	20	3.7	20	80	5	78	37	16	10	35	1.83
8287939--8288037	35	2.9	35	81	6	112	21	19	16	43	1.88
8287945--8288037	34	2.7	34	83	6	107	19	18	17	45	1.86
8309401--8309440	21	1.9	21	89	0	62	10	25	40	25	1.86
8309421--8309483	20	2.9	21	79	9	65	15	25	34	23	1.95
8313284--8313323	21	1.9	21	85	10	55	35	10	2	52	1.48
8317887--8318002	31	3.9	29	76	14	101	33	12	8	45	1.72
8321278--8321332	2	28.0	2	96	3	103	50	0	0	49	1.00
8323045--8323111	29	2.3	29	97	0	125	22	22	4	50	1.66
8326805--8326860	22	2.5	22	88	0	76	28	19	23	28	1.98
8326819--8326862	22	2.0	22	95	0	79	25	18	25	31	1.97
8327448--8327484	13	2.8	13	95	0	65	40	21	5	32	1.76
8330507--8330557	20	2.6	20	84	3	68	35	13	25	25	1.93
8331200--8331254	23	2.4	24	81	9	69	20	16	25	38	1.92
8332340--8332561	46	4.9	45	93	2	358	31	22	6	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8332331--8332561	45	5.1	46	92	3	362	30	22	6	40	1.79
8332666--8332815	40	3.8	40	93	0	255	34	29	13	23	1.93
8332666--8332815	80	1.9	80	97	0	282	34	29	13	23	1.93
8333134--8333179	24	1.9	24	95	0	83	45	15	8	30	1.76
8333721--8333784	31	2.1	30	85	5	85	35	15	6	42	1.72
8336298--8336336	20	2.0	20	90	10	62	20	28	25	25	1.99
8343426--8343452	2	13.5	2	100	0	54	51	0	0	48	1.00
8343523--8343679	77	2.1	75	89	2	233	33	15	21	30	1.94
8344315--8344359	19	2.4	19	88	0	63	13	24	24	37	1.91
8353684--8353933	135	1.8	135	86	6	340	36	9	14	39	1.79
8355706--8355731	13	2.0	13	100	0	52	46	7	15	30	1.74
8365007--8365048	17	2.5	17	84	3	50	28	19	16	35	1.93
8375683--8375729	22	2.1	22	96	0	85	44	4	14	36	1.65
8395128--8395172	23	2.0	23	86	0	63	42	0	0	57	0.98
8395112--8395170	30	2.0	29	83	9	75	38	0	0	61	0.96
8395251--8395291	21	2.0	21	95	0	73	36	29	12	21	1.90
8396419--8396771	157	2.3	158	87	3	482	47	6	19	26	1.74
8398301--8398335	12	2.8	12	91	4	52	25	25	0	48	1.51
8404397--8404437	21	2.0	20	85	4	55	43	9	0	46	1.36
8404914--8404948	12	2.8	12	95	4	61	22	25	0	51	1.48
8415141--8415181	21	1.9	22	90	5	66	75	0	4	19	0.98
8415828--8415971	77	1.9	77	86	2	209	58	11	0	29	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8420154--8420195	22	1.9	22	95	0	75	52	11	7	28	1.64
8420591--8420710	64	1.9	64	91	0	195	33	11	10	44	1.76
8420733--8420771	16	2.4	16	91	0	69	20	23	15	41	1.90
8432462--8432556	23	4.4	21	74	11	68	27	24	22	26	2.00
8432462--8432533	21	3.5	20	79	9	65	29	26	20	23	1.99
8432481--8432557	23	3.5	23	74	12	72	24	22	25	27	2.00
8434467--8434495	14	2.0	15	93	6	51	6	3	27	62	1.37
8435212--8435299	45	2.0	45	93	4	151	26	27	19	27	1.99
8441301--8441407	46	2.3	46	86	0	151	21	19	14	43	1.87
8441625--8441712	46	1.9	46	90	0	140	21	18	11	48	1.79
8442021--8442659	54	11.8	54	89	0	911	30	18	19	32	1.96
8445779--8445809	15	2.1	15	93	0	53	45	0	0	54	0.99
8446281--8446335	22	2.7	20	75	10	65	27	29	14	29	1.95
8449763--8449805	23	1.9	23	85	4	61	55	0	0	44	0.99
8452182--8452213	3	10.7	3	100	0	64	68	0	0	31	0.90
8452483--8452954	134	3.5	133	82	3	561	25	14	29	30	1.95
8452957--8453149	36	5.7	36	63	14	104	39	15	17	27	1.90
8452994--8453097	30	3.3	30	68	15	82	36	14	18	30	1.90
8452957--8453190	66	3.5	66	90	1	360	38	14	17	29	1.89
8453443--8453563	37	3.3	37	77	9	113	40	12	18	28	1.87
8453452--8453555	37	2.9	37	81	5	115	39	11	19	29	1.87
8454620--8454663	17	2.5	18	88	3	63	18	45	22	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8454669--8454797	29	4.5	29	86	2	172	35	6	23	34	1.82
8461732--8461768	19	1.9	19	100	0	74	13	27	32	27	1.94
8461732--8461770	9	4.2	9	83	6	51	12	30	30	25	1.93
8461766--8461790	13	1.9	13	100	0	50	16	48	24	12	1.79
8461796--8461919	29	4.3	29	90	2	187	34	7	22	35	1.82
8463868--8463905	19	2.0	20	84	5	51	28	7	13	50	1.69
8483656--8483708	23	2.3	23	100	0	106	32	3	33	30	1.76
8483748--8483914	90	1.9	90	94	0	298	34	12	7	45	1.70
8490240--8490407	90	1.9	91	93	1	293	35	12	6	45	1.68
8496970--8497094	59	2.2	56	88	4	178	30	24	16	28	1.97
8500155--8500180	7	3.7	7	100	0	52	26	11	0	61	1.30
8507932--8507998	26	2.6	26	74	9	64	65	7	5	20	1.39
8512104--8512167	22	2.8	23	90	2	103	60	9	6	23	1.50
8516371--8516412	22	2.0	22	85	4	59	38	0	2	59	1.10
8517284--8517312	12	2.5	12	94	5	51	41	13	6	37	1.72
8522608--8522861	55	4.6	55	88	4	345	32	18	12	36	1.88
8522624--8522861	109	2.2	110	89	2	354	31	18	13	36	1.89
8526067--8526100	17	2.0	17	88	0	50	44	0	2	52	1.16
8527574--8527628	3	17.7	3	88	7	83	63	0	0	36	0.95
8527573--8527631	19	3.1	19	85	9	84	61	0	0	38	0.96
8527574--8527631	22	2.8	21	87	10	84	62	0	0	37	0.96
8527757--8528015	76	3.4	76	91	0	401	34	19	20	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8528184--8528531	73	4.8	73	94	1	592	39	12	18	29	1.88
8528184--8528531	145	2.4	144	93	2	588	39	12	18	29	1.88
8528575--8528899	165	2.0	165	90	1	508	38	12	13	35	1.83
8529405--8529456	22	2.4	22	93	0	86	40	13	9	36	1.77
8532352--8532409	3	18.7	3	89	7	89	63	0	0	36	0.94
8532351--8532406	19	3.0	18	92	5	85	62	0	0	37	0.95
8532352--8532412	22	2.7	23	90	7	99	62	0	0	37	0.96
8532538--8532796	76	3.4	76	91	0	401	33	18	20	26	1.96
8532983--8533315	37	9.1	36	73	3	299	39	11	18	30	1.86
8532965--8533313	73	4.8	73	94	1	576	39	12	18	29	1.87

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