genome.fa.s8061.2.7.7.80.10.50.1000.25.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  25  of  26  ( 3118 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)
5245699--5245744	24	1.9	24	90	0	74	6	21	21	50	1.71
5253367--5253392	11	2.4	11	100	0	52	46	0	0	53	1.00
5254023--5254095	31	2.4	31	88	2	103	17	12	21	47	1.80
5255964--5256006	18	2.5	17	81	7	52	53	4	0	41	1.21
5267360--5267418	25	2.4	26	83	13	72	52	0	3	44	1.17
5267569--5267686	55	2.1	55	98	0	227	59	8	2	29	1.40
5267754--5267850	39	2.5	38	80	11	124	44	1	18	36	1.57
5268226--5268293	31	2.2	31	89	5	102	48	8	8	33	1.65
5268571--5268611	21	2.0	21	95	0	73	70	4	9	14	1.30
5269436--5269571	54	2.5	56	88	5	190	22	30	15	32	1.95
5269723--5269771	24	2.0	25	84	11	66	48	0	2	48	1.12
5269733--5269780	24	2.0	25	88	12	73	45	0	2	52	1.12
5286884--5286917	15	2.3	15	100	0	68	35	0	17	47	1.48
5287090--5287188	49	2.0	50	82	5	121	47	1	0	51	1.07
5287088--5287203	49	2.4	47	77	13	117	49	0	0	50	1.06
5287277--5287339	23	2.7	23	80	5	63	46	1	1	50	1.20
5287325--5287426	29	3.4	30	77	17	90	51	2	0	45	1.16
5287315--5287367	20	2.7	20	75	16	56	49	1	0	49	1.12
5287325--5287399	30	2.6	30	82	14	86	54	2	0	42	1.14
5289811--5289874	31	2.1	31	84	0	83	28	18	18	34	1.95
5289873--5289932	30	2.0	30	96	0	111	25	18	23	33	1.97
5295953--5295992	21	1.9	21	100	0	80	42	2	25	30	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5296548--5296680	60	2.2	60	82	7	155	39	12	8	39	1.74
5299340--5299404	28	2.3	28	91	0	103	33	10	15	40	1.82
5299504--5299580	40	2.0	37	90	9	120	33	12	18	35	1.89
5307938--5307968	9	3.3	9	95	4	53	77	0	0	22	0.77
5309298--5309335	20	1.9	20	89	10	60	52	10	0	36	1.36
5311061--5311108	17	3.0	15	77	14	51	56	27	2	14	1.50
5316560--5316599	21	1.9	21	89	0	62	32	7	2	57	1.40
5330739--5330886	73	2.0	73	98	0	287	31	25	20	22	1.98
5333302--5333473	88	2.0	88	97	0	326	41	13	23	20	1.88
5334401--5334535	20	6.7	20	77	7	94	33	23	17	25	1.96
5334398--5334535	61	2.3	61	84	5	190	34	23	16	25	1.95
5334704--5334747	22	2.0	22	95	0	79	20	40	15	22	1.90
5334990--5335053	20	3.2	20	86	0	83	15	18	21	43	1.87
5335190--5335244	25	2.2	24	78	15	58	20	9	18	52	1.71
5336373--5336417	18	2.5	18	88	0	72	26	44	15	13	1.83
5336893--5336938	20	2.3	20	84	0	56	36	23	21	17	1.94
5336947--5336986	14	2.9	14	100	0	80	50	27	15	7	1.70
5337020--5337110	14	5.9	14	72	20	74	10	18	23	47	1.80
5337015--5337126	33	3.4	33	95	1	199	11	19	22	46	1.82
5337111--5337166	20	2.8	19	86	7	76	16	25	23	35	1.94
5339205--5339288	20	4.2	20	78	6	89	19	21	22	36	1.95
5339511--5339568	20	2.9	20	89	0	80	25	20	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5340359--5340418	24	2.5	24	80	0	75	26	16	18	38	1.92
5340593--5340617	12	2.1	12	100	0	50	72	0	28	0	0.86
5341850--5341908	19	3.4	19	73	22	74	45	18	22	13	1.84
5341850--5341976	33	3.8	33	83	4	175	42	18	22	17	1.89
5341855--5341983	66	2.0	66	95	0	231	42	17	21	18	1.89
5341948--5341985	19	2.0	19	89	0	58	44	18	15	21	1.86
5341976--5342083	19	6.2	18	67	20	52	12	21	21	44	1.85
5341991--5342047	14	3.7	14	70	20	51	8	22	22	45	1.80
5341976--5342066	33	2.8	33	94	0	155	12	20	21	45	1.84
5342005--5342084	19	4.5	19	78	15	98	11	21	21	46	1.82
5342191--5342227	14	2.6	14	91	0	65	45	24	0	29	1.53
5343624--5343703	42	1.9	42	86	0	115	23	17	37	21	1.94
5343924--5344108	91	2.0	90	90	6	291	47	18	11	21	1.81
5345820--5345954	33	3.9	33	89	5	153	43	21	22	11	1.85
5345857--5345959	19	5.7	19	83	11	135	43	22	22	11	1.85
5345795--5345959	33	4.6	35	80	12	151	44	20	23	12	1.85
5346534--5346586	20	2.7	20	90	0	79	26	20	26	26	1.99
5346595--5346645	20	2.5	20	93	0	84	27	19	21	31	1.97
5347405--5347450	18	2.6	18	82	6	58	52	4	0	43	1.21
5348254--5348291	17	2.3	16	95	4	67	47	10	7	34	1.67
5356542--5356586	23	2.0	23	86	0	63	22	20	22	35	1.96
5358343--5358412	30	2.5	28	86	9	90	18	22	37	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5358916--5358965	2	25.0	2	100	0	100	50	0	0	50	1.00
5360561--5360602	3	14.0	3	100	0	84	66	0	33	0	0.92
5360666--5360717	12	4.3	12	75	0	50	44	1	42	11	1.51
5373762--5373823	28	2.2	28	78	16	67	43	6	3	46	1.45
5376900--5376929	7	4.3	7	95	0	51	33	0	40	26	1.57
5382600--5382644	23	2.0	23	86	0	63	44	26	8	20	1.80
5386684--5386756	32	2.3	32	85	4	94	34	12	19	34	1.89
5387766--5387823	21	2.9	19	80	9	80	34	15	15	34	1.89
5391677--5392098	182	2.3	182	95	0	754	48	4	7	38	1.52
5392923--5392962	20	2.0	21	85	14	57	40	5	10	45	1.60
5399423--5399594	87	2.0	87	92	0	290	43	11	12	33	1.77
5399529--5399578	23	2.2	23	85	0	64	36	10	20	34	1.86
5399538--5399585	23	2.1	23	88	0	69	37	8	20	33	1.83
5399852--5400180	183	1.8	180	90	3	525	44	12	11	31	1.78
5399852--5400124	93	3.0	89	74	9	291	43	13	12	30	1.81
5400028--5400373	112	3.1	112	86	2	498	44	12	10	32	1.76
5400694--5400899	87	2.4	87	92	0	333	44	11	11	32	1.77
5400834--5400893	23	2.6	23	83	0	75	43	10	15	31	1.79
5401142--5401614	112	4.2	114	88	3	679	43	11	10	33	1.76
5401149--5401614	226	2.1	225	88	2	693	43	11	11	33	1.76
5406935--5407122	69	2.7	69	90	0	277	38	14	7	38	1.76
5407042--5407375	179	1.9	179	88	1	508	41	12	5	39	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5407590--5407623	8	4.1	8	96	3	59	58	0	0	41	0.98
5410562--5410635	36	2.1	36	87	5	105	50	1	2	45	1.24
5421959--5422206	20	12.2	20	69	14	116	32	23	11	32	1.91
5422984--5423045	20	3.1	20	72	9	63	46	22	6	24	1.75
5423043--5423119	20	3.9	20	86	1	102	45	19	12	22	1.84
5423135--5423260	20	6.3	20	81	1	137	22	11	23	43	1.84
5425102--5425152	21	2.4	21	96	0	93	23	15	41	19	1.90
5425503--5425678	21	8.4	20	71	13	122	32	33	11	22	1.89
5425488--5425669	63	2.9	62	79	8	206	32	34	12	20	1.90
5425488--5425678	42	4.6	41	74	11	149	32	34	11	21	1.89
5425780--5425943	42	4.0	42	86	2	199	21	14	37	26	1.92
5432802--5432852	2	25.5	2	100	0	102	49	0	50	0	1.00
5440311--5440587	138	2.0	138	100	0	554	41	9	10	38	1.71
5440905--5440940	4	8.8	4	96	3	63	0	27	0	72	0.85
5441997--5442112	60	1.9	61	87	7	173	46	12	6	34	1.67
5447207--5447241	14	2.5	14	90	9	54	28	0	0	71	0.86
5447791--5447844	21	2.6	21	87	0	81	11	29	35	24	1.90
5450933--5450979	16	3.1	16	75	12	53	36	4	59	0	1.17
5451207--5451245	16	2.6	14	84	11	51	41	7	0	51	1.31
5452857--5452895	20	2.0	20	100	0	78	38	10	25	25	1.87
5452863--5452913	20	2.5	20	87	0	66	41	11	25	21	1.87
5453546--5453582	20	1.9	19	89	10	58	45	10	24	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5458421--5458804	183	2.1	183	97	1	716	41	9	8	40	1.68
5466928--5467112	93	2.0	93	84	2	246	33	14	20	32	1.92
5470290--5470328	21	2.0	21	85	10	55	41	12	17	28	1.87
5474117--5474193	40	1.9	40	94	0	136	41	10	19	28	1.84
5494492--5494566	35	2.1	35	92	0	123	33	29	28	9	1.88
5494644--5494718	24	3.2	24	88	1	116	36	21	17	25	1.95
5494648--5494724	23	3.3	23	85	3	109	36	20	18	24	1.95
5494627--5494740	47	2.4	47	79	5	124	40	19	14	25	1.90
5495872--5495907	18	2.0	18	88	0	54	30	16	0	52	1.44
5497182--5497227	7	6.3	7	92	7	74	26	26	34	13	1.92

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