genome.fa.s9585.2.7.7.80.10.50.1000.27.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  27  of  35  ( 4106 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)
6154677--6154859	37	4.9	38	77	15	186	43	5	4	46	1.46
6154704--6154841	72	1.9	73	88	7	210	42	5	4	47	1.45
6157684--6157881	63	3.1	63	88	0	297	13	9	45	31	1.74
6157834--6157920	39	2.2	38	83	4	102	5	8	50	35	1.56
6162626--6162683	14	3.9	14	79	16	71	8	17	25	48	1.75
6162610--6162699	32	2.8	32	89	3	135	10	17	25	46	1.79
6162621--6162699	32	2.4	33	95	2	142	10	18	24	46	1.80
6162621--6162699	14	4.8	17	71	22	62	10	18	24	46	1.80
6162684--6162739	20	2.8	19	84	7	67	16	23	23	37	1.93
6164611--6164646	14	2.6	14	90	0	54	30	0	22	47	1.52
6164753--6164806	14	3.5	14	75	22	54	50	20	18	11	1.77
6164762--6164811	14	2.9	18	72	27	63	50	18	20	12	1.78
6164734--6164811	33	2.4	33	88	0	111	43	21	21	12	1.86
6164830--6164887	20	2.9	20	97	0	107	15	22	24	37	1.93
6165940--6165993	24	2.2	24	90	0	81	24	16	20	38	1.92
6168471--6168599	14	7.7	19	64	25	67	43	20	21	14	1.87
6168471--6168595	33	3.8	32	83	11	164	43	20	21	15	1.88
6168472--6168594	65	1.9	65	93	3	212	43	20	21	15	1.88
6168610--6168666	14	3.7	14	75	20	60	8	24	22	43	1.81
6168595--6168684	33	2.7	33	92	0	144	13	21	21	44	1.85
6168624--6168684	19	3.5	19	70	21	60	11	21	21	45	1.82
6168791--6168827	14	2.6	14	91	0	65	45	24	0	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6170509--6170692	91	2.0	89	88	7	271	46	19	11	22	1.82
6172176--6172223	20	2.5	19	77	12	53	10	16	27	45	1.80
6172741--6172833	20	4.7	20	94	0	159	29	20	27	22	1.98
6182172--6182215	21	2.1	21	100	0	88	31	11	18	38	1.86
6187193--6187247	20	2.7	21	73	15	62	58	1	3	36	1.26
6187312--6187347	2	18.0	2	100	0	72	50	0	0	50	1.00
6189123--6189167	18	2.5	18	82	7	56	31	24	4	40	1.75
6214731--6214756	12	2.2	12	100	0	52	26	30	15	26	1.96
6216549--6216575	4	6.8	4	100	0	54	25	0	48	25	1.52
6217095--6217370	31	9.2	31	87	7	329	28	15	11	43	1.82
6217245--6217292	24	2.0	24	91	0	78	18	14	18	47	1.82
6217215--6217323	55	2.0	54	87	5	157	25	15	14	44	1.85
6217153--6217370	116	1.9	117	85	4	307	28	16	11	43	1.83
6218028--6218060	2	16.5	2	100	0	66	51	0	0	48	1.00
6223384--6223419	2	18.0	2	100	0	72	50	0	0	50	1.00
6229728--6229791	29	2.3	29	81	5	78	51	3	7	37	1.47
6235559--6235659	50	2.0	50	96	0	184	28	16	16	37	1.91
6237154--6237218	6	11.5	6	98	1	102	29	53	16	0	1.43
6237975--6238046	22	3.4	22	73	11	87	40	22	19	18	1.92
6237969--6238046	41	1.9	41	100	0	156	41	20	20	17	1.91
6238035--6238135	41	2.5	41	93	0	166	37	24	17	19	1.94
6238035--6238139	21	5.1	21	65	9	72	38	25	17	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6239083--6239126	19	2.2	20	88	4	63	50	18	18	13	1.79
6240583--6240920	100	3.4	100	84	4	450	41	13	11	33	1.80
6240936--6241242	108	2.8	108	86	1	443	36	14	11	38	1.82
6246360--6246405	14	3.1	14	84	6	56	52	13	8	26	1.69
6246456--6246550	33	2.9	33	96	0	172	45	16	6	31	1.73
6246545--6246586	21	2.0	21	95	0	75	47	7	14	30	1.71
6259827--6259875	15	3.3	15	75	16	57	67	2	0	30	1.02
6259830--6259875	14	3.2	14	80	17	58	69	2	0	28	1.00
6262032--6262092	16	3.8	16	91	0	104	55	21	13	9	1.66
6267856--6267912	27	2.2	26	81	9	62	61	0	12	26	1.31
6269163--6269229	28	2.4	28	95	2	118	13	8	34	43	1.75
6275925--6275972	22	2.1	23	84	7	62	8	18	14	58	1.61
6275912--6275972	23	2.7	24	80	7	65	13	18	14	54	1.72
6276514--6276557	14	3.1	14	77	6	52	20	18	15	45	1.85
6277553--6277600	23	2.1	24	84	7	64	56	4	2	37	1.30
6287084--6287108	2	12.5	2	100	0	50	48	0	0	52	1.00
6288749--6288785	18	2.1	18	100	0	74	37	10	29	21	1.88
6309118--6309160	21	2.1	20	83	12	52	51	2	0	46	1.13
6309697--6310096	199	2.0	198	97	0	746	30	16	25	27	1.97
6319134--6319227	18	5.2	18	89	0	143	19	20	31	28	1.97
6319133--6319240	36	3.0	36	83	0	144	20	21	30	27	1.98
6322117--6322160	22	2.0	23	81	4	54	45	2	18	34	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6323264--6323317	18	3.0	18	86	0	72	20	27	31	20	1.97
6328437--6328619	94	2.0	93	87	6	264	37	7	15	39	1.77
6328273--6328685	159	2.6	159	89	2	611	38	6	15	38	1.74
6328529--6328749	65	3.4	65	88	5	304	39	5	14	41	1.68
6328630--6328733	32	3.2	32	65	17	88	42	3	8	45	1.53
6328427--6328869	224	2.0	225	93	1	764	39	6	14	40	1.70
6328273--6328869	159	3.8	159	82	4	419	39	6	14	39	1.72
6328663--6328844	95	1.9	94	83	7	237	39	6	14	40	1.72
6335419--6335476	25	2.3	25	93	0	107	58	3	12	25	1.49
6345766--6345844	34	2.4	33	83	8	90	41	0	0	58	0.98
6345756--6345867	34	3.6	31	75	12	88	40	0	0	58	1.04
6347638--6347687	21	2.4	21	83	12	75	18	32	28	22	1.97
6348209--6348315	34	3.1	34	83	0	151	52	4	3	39	1.40
6348738--6349371	127	5.0	127	92	1	1038	33	20	23	22	1.97
6353980--6354109	65	2.0	65	100	0	260	24	15	20	40	1.91
6367465--6367542	39	2.0	39	100	0	156	30	15	23	30	1.95
6375191--6375245	27	2.0	27	100	0	110	27	14	29	29	1.95
6378798--6378840	21	2.0	21	86	0	59	30	27	25	16	1.97
6378820--6378971	68	2.2	68	84	3	191	28	27	28	15	1.96
6379274--6379344	28	2.5	28	90	2	106	39	9	12	38	1.77
6379359--6379417	30	1.9	31	86	3	84	37	6	22	33	1.80
6379634--6379700	22	3.0	22	100	0	134	19	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6385685--6385727	21	2.0	21	86	0	59	30	27	25	16	1.97
6385707--6385858	68	2.2	68	84	3	191	28	27	28	15	1.96
6386160--6386230	28	2.5	28	90	2	106	39	9	12	38	1.77
6386245--6386303	30	1.9	31	86	3	84	37	6	22	33	1.80
6386518--6386584	22	3.0	22	100	0	134	19	26	26	26	1.99
6389279--6389330	26	2.0	26	100	0	104	23	23	15	38	1.92
6398515--6398712	98	2.0	99	99	1	389	22	13	16	48	1.80
6399225--6399253	11	2.6	11	100	0	58	55	17	6	20	1.65
6402987--6403138	76	2.0	76	100	0	304	27	15	17	39	1.90
6405267--6405300	15	2.3	15	89	0	50	41	0	8	50	1.34
6406186--6406240	15	3.9	14	75	13	58	49	0	3	47	1.19
6406343--6406377	17	2.0	18	88	5	54	60	2	2	34	1.26
6406362--6406416	21	2.7	19	79	20	58	49	1	3	45	1.30
6406418--6406520	13	7.3	13	71	17	55	46	4	3	44	1.43
6406403--6406520	15	7.9	15	70	19	68	46	5	3	44	1.42
6406377--6406471	18	5.4	18	72	24	71	45	3	2	49	1.29
6406448--6406508	28	2.3	26	91	5	95	45	6	4	42	1.51
6406556--6406832	2	135.0	2	62	20	56	46	4	6	41	1.50
6406454--6406656	81	2.5	81	87	3	284	45	3	6	43	1.47
6406448--6407049	13	43.5	13	65	22	110	47	6	6	40	1.54
6406568--6407081	15	34.4	15	64	17	137	48	6	6	39	1.54
6406775--6407081	28	10.5	28	70	13	156	48	7	5	38	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6406859--6406910	19	2.8	19	85	5	72	51	7	3	36	1.49
6406869--6406971	46	2.2	47	86	5	138	48	7	4	38	1.53
6406913--6407013	33	2.7	40	75	17	103	51	7	3	36	1.50
6407131--6407181	18	2.8	20	82	17	74	45	5	3	45	1.46
6407076--6407172	18	5.3	18	70	22	69	46	3	6	44	1.44
6407392--6407647	120	2.1	120	95	0	458	41	16	14	27	1.87
6421723--6421797	37	2.0	37	82	10	91	49	4	1	45	1.29
6422239--6422313	37	2.0	37	85	10	100	46	1	5	46	1.33
6422646--6422670	9	2.8	9	100	0	50	12	32	32	24	1.91
6422700--6422740	22	1.9	21	90	5	64	70	2	0	26	0.99

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