genome.fa.s8094.2.7.7.80.10.50.1000.25.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  25  of  43  ( 5090 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)
5019961--5020009	2	24.5	2	100	0	98	51	0	0	48	1.00
5023262--5023376	52	2.2	51	84	7	142	48	11	9	30	1.71
5027160--5027198	2	19.5	2	100	0	78	51	0	0	48	1.00
5027701--5027749	20	2.5	20	89	0	71	34	16	18	30	1.93
5030855--5030908	23	2.3	23	96	0	99	20	12	53	12	1.71
5030947--5031022	21	3.6	21	85	0	107	10	22	32	34	1.88
5031054--5031113	3	20.3	3	96	3	113	66	0	0	33	0.92
5031355--5031710	137	2.6	137	90	2	529	27	19	15	37	1.91
5031629--5032316	122	5.7	122	88	3	920	26	19	14	39	1.90
5032112--5032336	112	2.0	112	95	0	405	28	19	15	37	1.91
5033874--5033911	15	2.4	16	83	16	53	13	10	0	76	1.02
5041233--5041281	15	3.3	15	83	13	57	51	6	16	26	1.68
5045994--5046061	30	2.3	30	97	0	127	33	23	11	30	1.91
5046258--5046312	26	2.1	26	100	0	110	27	20	18	34	1.95
5050483--5050658	90	2.0	90	90	0	280	37	11	6	44	1.67
5059490--5059522	10	3.3	10	95	0	57	27	9	21	42	1.83
5060655--5060706	19	2.7	19	87	3	68	19	25	28	26	1.98
5060655--5060704	10	5.1	10	74	13	50	20	22	30	28	1.98
5060700--5060757	17	3.4	17	92	0	89	18	39	24	17	1.92
5060746--5060796	7	7.6	7	89	8	79	17	29	27	25	1.98
5060730--5060790	13	4.8	13	84	13	83	16	34	27	21	1.95
5060730--5060796	20	3.5	19	86	9	84	17	32	26	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5067846--5067914	10	7.1	10	76	12	72	18	23	30	27	1.98
5067846--5067916	19	3.7	19	88	5	90	18	25	29	26	1.98
5067910--5067984	17	4.4	17	98	0	141	17	44	24	14	1.86
5067974--5068011	7	5.4	7	81	12	51	15	31	31	21	1.94
5082590--5082822	119	2.0	119	89	0	358	30	10	16	42	1.81
5090243--5090352	45	2.4	45	86	5	152	41	14	16	27	1.87
5099457--5099507	2	25.5	2	100	0	102	49	0	50	0	1.00
5099724--5099757	16	2.1	16	89	10	52	38	0	5	55	1.24
5100996--5101041	22	2.0	22	87	4	65	45	10	4	39	1.59
5104764--5104797	13	2.6	14	86	13	54	35	17	11	35	1.87
5104791--5105013	85	2.6	85	85	5	265	30	20	17	32	1.95
5104869--5105041	85	2.0	84	84	4	222	31	19	17	30	1.95
5105061--5105102	2	21.0	2	85	0	57	54	0	2	42	1.13
5107478--5107539	19	3.2	19	68	8	54	3	41	4	50	1.40
5115506--5115569	21	3.1	21	70	4	67	17	15	26	40	1.89
5115558--5115610	22	2.4	22	90	0	88	16	15	28	39	1.89
5115710--5115747	6	6.5	6	96	3	69	31	52	15	0	1.43
5116230--5116270	5	8.4	5	97	2	75	0	41	21	36	1.54
5116276--5116367	6	15.5	6	91	2	114	0	15	57	27	1.38
5116276--5116367	18	5.2	18	89	1	132	0	15	57	27	1.38
5116476--5116603	20	6.7	20	73	12	124	42	21	21	14	1.89
5116492--5116603	34	3.1	35	75	17	120	42	20	21	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5128303--5128342	21	2.0	20	85	5	53	55	0	10	35	1.34
5133998--5134200	54	3.8	53	88	2	291	33	17	18	30	1.94
5138907--5139211	45	6.8	45	81	4	346	39	9	19	31	1.84
5138907--5139250	45	7.6	45	81	5	293	39	9	18	32	1.82
5144653--5144677	13	1.9	13	100	0	50	0	36	0	64	0.94
5145413--5145453	22	1.9	22	90	5	66	31	14	31	21	1.94
5145919--5146230	45	6.8	45	79	12	307	41	9	18	30	1.83
5145970--5146096	40	3.0	40	82	10	164	42	11	22	24	1.85
5145924--5146231	85	3.4	86	76	12	271	41	10	18	30	1.83
5146097--5146200	54	1.9	54	94	0	181	40	7	17	34	1.78
5146052--5146230	99	1.8	99	86	2	261	40	9	18	31	1.83
5146170--5146274	45	2.3	45	81	3	113	43	9	14	32	1.77
5152332--5152392	22	2.9	20	79	11	77	27	13	34	24	1.93
5152979--5153276	45	6.7	44	84	3	319	39	10	20	30	1.85
5152979--5153277	135	2.2	135	82	2	352	39	10	20	30	1.85
5152979--5153277	90	3.3	90	80	2	359	39	10	20	30	1.85
5152979--5153316	90	3.8	89	76	5	315	39	9	20	31	1.84
5155792--5155848	22	2.7	22	83	5	73	35	14	22	28	1.93
5156551--5156806	54	4.7	54	87	0	332	33	18	18	29	1.95
5159639--5159700	23	2.7	23	84	0	79	30	24	22	22	1.99
5161654--5161701	24	2.0	25	87	4	71	16	12	2	68	1.29
5161654--5161704	12	4.2	12	79	2	57	17	13	1	66	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5162995--5163040	19	2.4	19	81	0	56	23	26	28	21	1.99
5165129--5165177	25	1.9	25	83	4	62	26	8	14	51	1.70
5170269--5170332	11	5.5	11	78	14	67	43	7	1	46	1.42
5171262--5171396	70	1.9	71	87	4	202	45	2	3	48	1.35
5172220--5172508	54	5.4	54	87	1	382	26	19	19	33	1.96
5177444--5177492	14	3.8	14	79	20	70	8	12	24	55	1.64
5177452--5177499	10	4.4	10	78	19	51	8	12	25	54	1.65
5177444--5177499	24	2.3	24	100	0	112	8	12	23	55	1.65
5177959--5178025	16	4.3	16	88	3	93	10	10	20	58	1.61
5179914--5180362	54	8.3	54	86	2	580	26	18	19	34	1.96
5181188--5181368	94	1.9	95	85	3	249	37	12	23	25	1.91
5181776--5182349	81	7.1	81	86	0	752	35	11	21	32	1.89
5184014--5184043	13	2.2	14	94	5	53	40	0	13	46	1.43
5184709--5184749	18	2.3	18	95	0	73	0	29	24	46	1.53
5186315--5186397	22	3.8	22	76	12	80	22	27	27	21	1.99
5186338--5186386	23	2.1	23	96	0	89	22	24	32	20	1.98
5192122--5192176	22	2.5	22	90	0	83	20	21	41	16	1.90
5194387--5194468	9	9.6	9	73	17	50	68	0	7	24	1.15
5194437--5194470	3	11.3	3	100	0	68	67	0	0	32	0.91
5199595--5199638	22	2.0	22	100	0	88	45	22	4	27	1.72
5201188--5201261	21	3.5	21	79	17	98	55	0	2	41	1.14
5201163--5201262	43	2.2	44	89	10	157	56	0	3	41	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5201179--5201261	43	1.9	44	97	2	159	55	0	2	42	1.13
5202439--5202539	45	2.3	45	84	1	123	20	15	41	21	1.90
5212756--5213077	54	5.9	54	89	1	432	32	12	17	38	1.86
5213436--5213479	23	1.9	23	85	0	61	38	4	9	47	1.56
5220506--5220545	20	2.0	20	100	0	80	55	25	0	20	1.44
5233385--5233504	35	3.4	35	83	3	152	38	15	17	28	1.91
5233385--5233525	35	4.0	35	81	4	149	38	17	17	27	1.91
5236999--5237150	41	3.7	41	86	6	202	23	20	23	32	1.98
5236999--5237105	21	5.2	21	63	20	64	23	18	23	34	1.96
5236976--5237150	82	2.1	83	80	11	207	24	21	21	32	1.98
5240412--5240466	6	9.2	6	93	0	74	29	47	16	7	1.73
5240464--5240512	15	3.3	15	77	11	55	24	30	38	6	1.80
5246373--5246433	6	10.2	6	92	0	95	32	49	14	3	1.60
5246431--5246474	5	8.8	5	87	0	52	25	34	38	2	1.68
5247791--5247837	24	2.0	24	82	0	58	53	2	0	44	1.12
5248621--5248655	15	2.4	14	86	9	52	65	0	2	31	1.07
5251277--5251311	16	2.2	16	89	0	52	34	2	0	62	1.10
5251317--5251366	21	2.4	21	87	9	68	40	0	4	56	1.18
5251538--5251563	2	13.0	2	100	0	52	50	0	0	50	1.00
5252506--5252533	14	2.0	14	100	0	56	21	57	21	0	1.41
5252506--5252536	5	6.4	5	92	7	55	22	54	22	0	1.44
5259766--5259826	10	6.3	9	76	14	50	18	26	26	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5259781--5259826	19	2.4	19	85	3	56	17	26	26	30	1.97
5259823--5259872	5	9.8	5	79	12	57	22	52	22	4	1.64
5259823--5259850	14	2.0	14	100	0	56	21	57	21	0	1.41
5259842--5259879	17	2.2	17	95	0	67	21	44	23	10	1.83
5266666--5266767	3	33.3	3	84	3	132	62	0	0	35	1.08
5266883--5267806	45	20.5	45	92	0	1407	35	19	23	21	1.96
5267777--5267831	25	2.2	25	96	0	101	32	16	27	23	1.96
5268498--5268577	22	3.6	22	75	18	85	40	11	12	36	1.79
5280741--5280818	3	25.3	3	79	5	84	61	1	1	35	1.12
5281827--5281871	19	2.4	19	80	0	54	51	0	2	46	1.13

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