genome.fa.s8016.2.7.7.80.10.50.1000.19.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  19  of  25  ( 2971 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)
4190622--4190695	36	2.1	35	87	5	103	48	4	0	47	1.20
4191804--4191834	4	7.8	4	100	0	62	51	0	0	48	1.00
4193353--4193796	6	74.0	6	100	0	888	33	0	16	50	1.46
4197362--4197440	32	2.5	30	74	11	70	34	18	13	32	1.91
4206004--4206041	19	2.0	19	100	0	76	31	36	21	10	1.87
4206056--4206126	32	2.2	32	92	0	115	30	30	29	8	1.87
4206114--4206208	29	3.3	29	95	0	163	13	30	32	23	1.93
4206235--4206349	49	2.4	49	88	8	177	20	37	19	22	1.94
4206561--4206599	16	2.3	18	86	8	55	38	0	5	56	1.22
4206704--4206795	46	2.0	48	85	12	129	41	0	10	47	1.38
4206825--4206877	12	4.3	12	81	11	63	30	0	16	52	1.44
4206858--4206934	34	2.3	33	82	10	95	41	0	11	46	1.40
4206975--4207021	16	3.0	16	84	9	53	29	0	10	59	1.31
4206996--4207026	15	2.1	14	94	5	53	38	0	6	54	1.26
4209176--4209208	17	1.9	17	100	0	66	48	9	6	36	1.60
4209175--4209225	14	3.4	14	82	12	57	45	7	7	39	1.62
4209203--4209246	21	2.1	21	86	0	61	45	4	9	40	1.56
4209213--4209246	11	3.2	11	83	8	52	47	5	8	38	1.59
4209193--4209257	14	5.2	13	76	17	50	46	7	7	38	1.61
4209343--4209438	11	7.9	12	75	14	81	50	4	2	43	1.33
4209405--4209617	12	15.2	13	69	23	82	44	10	1	43	1.49
4209346--4209546	26	8.2	25	73	16	111	46	8	1	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4209399--4209617	98	2.2	98	96	1	404	44	10	1	43	1.48
4209613--4209639	7	3.9	7	100	0	54	14	14	14	55	1.70
4209711--4210045	11	28.2	11	65	22	83	45	14	0	39	1.45
4209717--4210158	60	7.3	60	94	3	782	45	14	0	39	1.45
4213225--4213278	28	1.9	28	96	0	99	57	12	0	29	1.36
4213221--4213285	28	2.3	28	84	10	96	55	10	0	33	1.35
4213255--4213303	21	2.3	21	85	3	71	53	16	0	30	1.43
4213915--4214031	20	5.8	20	71	16	82	11	17	47	23	1.79
4213915--4214017	30	3.4	30	89	0	170	10	18	47	23	1.79
4213995--4214027	10	3.3	10	100	0	66	9	18	51	21	1.73
4214041--4214104	29	2.2	29	97	0	119	7	26	45	20	1.78
4214088--4214119	15	2.1	15	100	0	64	6	28	40	25	1.79
4214354--4214418	25	2.6	25	97	0	121	36	12	10	40	1.78
4216028--4216982	183	5.2	183	98	0	1829	33	16	15	34	1.91
4218182--4218259	3	26.0	3	76	0	75	24	32	6	37	1.81
4218201--4218270	36	1.9	36	94	0	122	20	31	10	38	1.85
4218183--4218276	12	7.8	12	84	0	89	22	31	7	38	1.82
4218213--4218276	18	3.6	18	72	16	60	18	31	9	40	1.83
4219741--4220517	200	3.9	200	96	1	1407	30	17	14	36	1.90
4220624--4220684	19	3.3	18	88	2	59	52	11	1	34	1.47
4220636--4220684	19	2.6	19	96	0	89	55	10	2	32	1.45
4222475--4222540	33	2.0	33	90	0	105	22	48	0	28	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4222574--4222638	21	3.1	21	93	0	103	16	30	10	41	1.83
4224859--4224917	20	3.0	19	76	9	64	20	13	8	57	1.62
4224887--4225221	161	2.1	161	88	2	494	28	17	13	41	1.87
4226400--4226516	56	2.1	56	95	0	207	25	16	31	26	1.96
4230522--4230587	24	2.7	24	95	2	114	25	33	6	34	1.81
4244087--4244120	13	2.8	12	86	8	50	17	0	0	82	0.67
4245667--4245735	29	2.3	29	80	5	84	17	13	10	59	1.60
4257702--4257782	8	11.0	7	75	17	51	81	0	12	6	0.86
4257703--4257771	11	5.7	11	74	17	57	82	0	13	4	0.81
4257726--4257770	16	2.9	16	81	15	58	75	0	17	6	1.01
4257702--4257783	16	5.0	17	72	14	57	80	0	13	6	0.89
4258721--4258980	141	1.8	141	87	3	389	27	28	18	25	1.98
4259143--4259189	11	4.3	11	83	8	60	27	0	0	72	0.85
4260649--4260717	29	2.3	29	80	5	84	17	13	10	59	1.60
4261860--4261904	23	1.9	24	90	4	74	55	0	4	40	1.20
4262369--4262423	27	2.0	27	89	0	83	7	54	14	23	1.65
4262593--4262651	26	2.3	27	85	8	86	47	8	33	10	1.68
4262603--4262657	26	2.2	26	83	3	67	50	9	29	10	1.68
4265320--4265346	14	1.9	14	100	0	54	74	14	3	7	1.18
4265728--4265818	28	3.2	28	96	3	164	57	13	0	29	1.37
4265795--4265843	21	2.3	21	85	3	71	53	16	0	30	1.43
4266427--4266482	29	1.9	29	85	7	78	12	30	30	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4273234--4273273	21	1.9	21	94	0	71	22	7	25	45	1.78
4273230--4273281	21	2.5	21	81	12	70	25	7	25	42	1.81
4273607--4273658	27	1.9	27	84	7	70	42	3	1	51	1.31
4276282--4276361	37	2.2	37	88	4	117	27	7	22	42	1.80
4281153--4281216	24	2.8	23	77	15	71	20	29	18	31	1.96
4283493--4283535	21	2.0	21	86	8	61	23	23	18	34	1.96
4290825--4290868	21	2.1	21	95	0	79	40	9	31	18	1.81
4291014--4291052	20	1.9	21	85	15	55	46	2	5	46	1.38
4291059--4291103	5	9.6	5	81	13	51	37	4	0	57	1.19
4291136--4291201	18	3.6	18	74	11	62	59	1	1	37	1.16
4291250--4291483	119	1.9	123	84	8	320	35	8	23	32	1.85
4291250--4291495	123	2.0	118	83	9	309	35	8	23	32	1.85
4292423--4292448	13	2.0	13	100	0	52	30	0	30	38	1.58
4293089--4293147	21	2.8	21	76	0	64	23	37	27	11	1.90
4301999--4302163	76	2.2	75	83	3	206	31	1	9	57	1.40
4303039--4303072	15	2.3	15	94	0	59	44	26	26	2	1.69
4306968--4307014	20	2.3	20	85	7	69	10	2	4	82	0.88
4308615--4308762	76	2.0	75	84	6	192	29	2	9	58	1.43
4308731--4308834	29	3.1	34	66	23	85	31	0	12	55	1.37
4308730--4308855	65	1.9	65	82	9	159	30	0	12	56	1.42
4309423--4309493	19	3.6	19	81	10	81	21	4	0	74	0.98
4309451--4309486	11	3.5	11	78	21	51	22	5	0	72	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4309448--4309493	19	2.5	19	96	3	85	19	4	0	76	0.96
4314052--4314102	18	2.8	18	75	0	57	41	9	39	9	1.71
4318169--4318232	23	2.8	23	87	0	83	32	17	21	28	1.96
4318254--4318324	30	2.4	30	100	0	142	39	22	11	26	1.88
4325274--4325312	17	2.3	17	95	0	69	12	20	46	20	1.83
4325315--4325392	19	4.1	19	76	14	79	26	28	26	17	1.98
4325313--4325391	10	8.3	9	78	8	68	26	27	29	16	1.97
4332606--4332664	9	6.3	9	78	7	55	25	30	28	15	1.96
4332608--4332665	19	3.1	19	85	5	82	25	31	25	17	1.97
4334703--4334731	14	2.1	14	100	0	58	31	6	20	41	1.79
4335573--4335651	41	1.9	41	94	5	142	20	10	13	55	1.67
4335838--4335890	23	2.3	23	87	6	72	50	1	0	47	1.12
4335872--4335995	30	4.1	30	76	17	100	49	0	1	49	1.10
4335815--4335989	58	3.0	60	73	16	159	49	0	1	48	1.12
4335984--4336028	23	2.0	23	86	0	63	53	2	2	42	1.25
4336332--4336372	14	2.9	14	88	0	55	36	19	14	29	1.92
4336362--4336400	20	2.0	20	84	0	51	33	17	7	41	1.79
4336374--4336454	29	2.8	30	88	7	114	34	17	7	40	1.77
4336374--4336458	44	1.9	44	88	4	127	32	16	7	43	1.75
4336374--4336454	15	5.5	15	83	5	94	34	17	7	40	1.77
4339494--4339541	13	3.8	13	80	2	62	16	4	12	66	1.39
4343990--4344184	97	2.0	98	98	1	383	38	14	21	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4347995--4348254	130	2.0	130	100	0	520	40	8	16	34	1.79
4348843--4348962	64	1.9	62	81	6	143	35	20	18	26	1.95
4349442--4349471	15	2.0	15	100	0	60	13	20	40	26	1.89
4355488--4355641	63	2.4	61	81	9	159	34	20	18	27	1.95
4355949--4355984	12	3.0	12	91	0	63	33	5	25	36	1.79
4355949--4356017	24	2.8	26	83	12	85	37	5	24	31	1.79
4356129--4356161	15	2.2	15	100	0	66	15	18	33	33	1.92
4357753--4357796	21	2.1	21	86	0	61	9	40	15	34	1.79
4358896--4359055	65	2.5	63	82	6	187	31	21	17	29	1.96
4362197--4362292	31	3.1	31	93	0	156	34	27	18	19	1.96

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