genome.fa.s7984.2.7.7.80.10.50.1000.21.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   57   58   59   60   61   62   63   64   
          65   

This is table  21  of  65  ( 7696 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)
4050574--4051034	54	8.5	54	89	1	638	36	20	18	25	1.95
4052178--4052234	22	2.6	22	91	0	96	26	5	21	47	1.71
4058926--4058975	20	2.5	20	87	6	66	38	12	28	22	1.89
4059433--4059518	15	5.7	15	81	0	100	38	2	18	40	1.64
4059433--4059518	45	1.9	45	85	0	118	38	2	18	40	1.64
4059433--4059530	45	2.2	45	83	0	115	37	5	18	38	1.73
4059650--4059722	23	3.1	23	76	18	69	27	26	20	26	1.99
4059649--4059721	25	3.0	24	80	13	78	27	24	20	27	1.99
4059649--4059746	48	2.0	48	81	11	112	26	24	21	27	1.99
4066800--4066845	2	23.0	2	100	0	92	50	0	0	50	1.00
4067290--4067376	20	4.2	20	72	15	61	16	27	32	24	1.96
4076018--4076088	30	2.4	30	85	0	88	39	4	16	39	1.69
4076018--4076088	15	4.7	15	78	0	70	39	4	16	39	1.69
4076351--4076392	20	2.1	20	86	0	57	30	11	23	33	1.91
4095563--4095598	13	2.8	13	95	0	63	2	41	0	55	1.14
4108221--4108254	13	2.5	13	90	4	50	35	0	17	47	1.48
4118880--4118917	2	19.0	2	100	0	76	50	0	0	50	1.00
4120971--4121033	21	3.0	21	88	0	99	28	25	20	25	1.99
4126202--4126230	9	3.3	9	90	9	51	34	0	0	65	0.93
4126862--4127474	329	1.9	329	91	2	1025	40	6	10	42	1.64
4130525--4130683	79	2.0	79	97	0	300	36	14	16	32	1.89
4133629--4133732	50	2.1	51	92	1	174	12	10	17	59	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4136434--4136536	51	2.1	50	90	3	163	59	17	9	13	1.61
4140119--4140148	2	15.0	2	100	0	60	0	50	0	50	1.00
4141836--4141863	2	14.0	2	100	0	56	50	0	0	50	1.00
4141628--4141859	106	2.2	107	82	9	269	45	3	3	47	1.36
4146824--4146973	20	7.6	20	72	10	76	36	24	14	26	1.93
4146845--4146973	20	6.6	20	72	13	81	36	23	13	26	1.92
4147720--4147753	12	2.8	12	90	0	50	55	29	0	14	1.40
4147879--4147932	24	2.2	24	90	0	81	20	16	20	42	1.89
4150118--4150150	17	1.9	17	93	0	57	57	21	3	18	1.53
4150436--4150532	20	5.2	20	74	14	107	39	22	20	17	1.93
4150615--4150755	61	2.2	63	83	8	171	50	17	1	31	1.54
4152133--4152229	21	4.6	21	75	8	72	22	15	30	30	1.95
4152180--4152235	21	2.7	21	74	20	62	23	12	30	33	1.92
4154387--4154441	20	2.8	20	97	0	101	50	21	18	9	1.74
4154742--4154788	22	2.1	22	92	0	76	23	14	40	21	1.90
4154938--4154981	21	2.1	21	86	0	61	38	15	22	22	1.92
4155237--4155268	2	16.0	2	100	0	64	0	50	0	50	1.00
4155268--4155298	2	15.5	2	100	0	62	48	0	0	51	1.00
4161319--4161363	21	2.1	21	100	0	90	53	28	4	13	1.59
4162191--4162226	18	2.0	18	100	0	72	44	27	22	5	1.75
4162451--4162486	6	6.0	6	86	0	54	0	55	13	30	1.39
4162454--4162493	12	3.3	12	89	0	53	0	57	10	32	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4171157--4171216	20	3.0	20	92	4	95	38	31	15	15	1.88
4178268--4178303	17	2.1	17	100	0	72	44	25	22	8	1.80
4179168--4179246	32	2.5	32	82	15	101	17	7	6	68	1.35
4182428--4182491	11	5.5	11	79	15	67	79	3	15	1	0.93
4182428--4182509	11	7.3	11	73	20	55	76	2	17	3	1.03
4183561--4183636	32	2.4	32	82	4	91	32	13	18	35	1.89
4184220--4184541	106	3.0	106	88	0	448	33	22	20	22	1.97
4184823--4184916	32	2.7	35	77	14	104	27	14	15	41	1.87
4184850--4184913	32	2.0	32	100	0	128	28	12	18	40	1.87
4184932--4185003	36	2.0	37	81	8	85	30	16	13	38	1.88
4184882--4185096	87	2.5	87	93	0	358	32	17	13	37	1.88
4185006--4185244	101	2.3	103	87	4	342	32	17	12	37	1.87
4185130--4185216	37	2.4	37	90	1	131	25	19	12	42	1.86
4185281--4185514	36	6.7	35	74	17	182	26	20	13	39	1.89
4185512--4185588	39	2.0	39	85	7	104	45	24	5	24	1.74
4186747--4186843	39	2.4	39	79	8	106	31	2	3	62	1.22
4186990--4187035	4	11.8	4	77	13	51	21	2	0	76	0.90
4186989--4187052	23	2.9	22	78	15	69	18	6	1	73	1.12
4186990--4187060	31	2.3	31	85	11	92	21	4	1	73	1.08
4188355--4188618	139	1.9	138	81	4	316	47	11	13	27	1.77
4189821--4189900	36	2.2	36	93	0	142	43	5	6	45	1.51
4190071--4190112	20	2.1	21	83	16	54	28	16	4	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4194614--4194660	2	23.5	2	100	0	94	48	0	0	51	1.00
4195013--4195080	2	34.0	2	100	0	136	50	0	0	50	1.00
4194614--4195409	398	2.0	396	89	3	1233	35	12	12	39	1.81
4205581--4205626	21	2.2	21	84	0	56	32	21	15	30	1.94
4208004--4208033	5	6.0	5	100	0	60	60	0	0	40	0.97
4208132--4208187	28	1.9	30	86	13	82	44	10	0	44	1.38
4208202--4208278	30	2.8	28	84	15	106	40	11	1	46	1.48
4208203--4208288	30	3.1	27	75	17	88	38	10	1	50	1.45
4216550--4216589	17	2.4	17	100	0	80	20	20	20	40	1.92
4219658--4219702	22	2.0	22	100	0	90	51	17	8	22	1.73
4221096--4221125	2	15.0	2	92	0	51	46	0	3	50	1.18
4222908--4222968	24	2.5	24	78	7	79	29	22	22	24	1.99
4223109--4223146	15	2.5	15	87	8	51	23	26	7	42	1.81
4223642--4223694	20	2.7	20	90	0	88	26	22	11	39	1.88
4228992--4229053	21	2.7	24	76	19	69	29	9	0	61	1.28
4237116--4237167	26	2.0	26	88	0	77	25	19	26	28	1.98
4237542--4237600	28	2.1	28	100	0	118	20	28	10	40	1.85
4239995--4240048	24	2.2	24	76	0	63	35	20	20	24	1.96
4240042--4240109	24	2.8	24	82	4	66	36	19	20	23	1.95
4240251--4240302	15	3.5	15	75	19	54	34	21	5	38	1.77
4250893--4250954	31	2.0	31	90	3	99	11	8	14	66	1.45
4250992--4251063	17	4.1	17	76	16	74	20	26	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4251003--4251036	13	2.6	13	85	0	50	14	23	29	32	1.94
4251271--4251378	55	2.0	55	98	0	207	39	6	20	33	1.78
4255043--4255094	2	26.0	2	88	0	77	48	0	51	0	1.00
4255263--4255321	29	2.0	29	96	0	109	23	15	13	47	1.81
4259953--4260011	29	2.0	29	100	0	118	23	13	13	49	1.78
4261806--4262048	82	3.0	82	79	6	206	31	14	24	29	1.95
4270139--4270196	21	2.8	21	86	0	80	44	18	32	3	1.67
4270610--4270764	44	3.6	42	76	10	143	29	22	17	30	1.97
4270822--4270958	43	3.2	43	76	2	123	24	24	22	29	1.99
4281847--4281871	13	1.9	13	100	0	50	64	8	20	8	1.46
4282348--4282387	10	3.8	10	90	9	62	85	2	0	12	0.71
4282352--4282406	19	2.7	20	86	13	69	78	3	3	14	1.03
4289830--4289940	20	5.6	20	89	0	159	26	25	22	26	2.00
4289793--4289938	60	2.4	60	80	4	159	28	23	21	26	1.99
4290106--4290157	22	2.4	22	80	0	68	23	36	19	21	1.95
4290527--4290633	20	5.4	20	85	3	110	13	16	24	45	1.83
4292228--4292273	21	2.2	21	84	7	58	15	17	32	34	1.91
4292537--4292604	20	3.4	20	87	0	91	36	23	19	20	1.95
4294678--4294716	14	2.8	14	96	0	69	41	0	12	46	1.42
4294800--4294852	20	2.7	20	87	0	70	45	24	16	13	1.83
4294862--4294986	34	3.5	34	75	18	110	24	20	20	36	1.95
4294896--4295120	20	11.9	19	69	16	121	27	17	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4294896--4295120	40	5.9	40	71	17	149	27	17	20	34	1.95
4294856--4295023	74	2.3	74	84	2	212	25	19	20	34	1.96
4294916--4295018	54	1.9	54	86	4	145	25	19	21	33	1.97
4294918--4295120	94	2.2	94	84	3	266	26	16	21	35	1.94
4295414--4295448	18	1.9	18	94	0	61	20	2	22	54	1.58
4297696--4297749	24	2.2	24	93	0	90	40	20	18	20	1.91
4298570--4298656	20	4.3	20	95	0	129	26	21	27	24	1.99
4298571--4298721	20	7.6	20	89	3	119	25	19	21	32	1.97
4298586--4298721	40	3.4	40	80	6	141	25	19	21	33	1.97
4299653--4299723	37	2.0	37	94	5	128	23	12	5	57	1.56

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   57   58   59   60   61   62   63   64   
          65