genome.fa.s7957.2.7.7.80.10.50.1000.23.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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  23  of  43  ( 5063 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)
4770703--4770788	24	3.6	24	70	6	75	40	16	15	27	1.88
4770699--4770802	48	2.2	48	96	0	190	41	16	15	26	1.88
4770727--4770812	24	3.6	24	75	0	100	44	15	12	27	1.83
4770699--4770816	48	2.5	48	91	0	173	42	16	14	27	1.86
4775758--4775842	24	3.6	23	74	4	80	40	17	15	27	1.89
4775754--4775871	47	2.5	47	92	1	191	42	16	13	27	1.86
4775782--4775866	24	3.6	24	79	3	109	43	15	11	29	1.82
4776592--4776648	29	2.0	29	85	0	78	47	15	5	31	1.68
4779101--4779300	111	1.8	111	80	9	248	51	13	11	24	1.73
4780967--4781129	29	5.6	29	74	7	132	43	23	6	26	1.78
4780963--4781126	88	1.9	88	90	0	265	45	22	6	26	1.76
4781149--4781196	13	3.7	13	85	0	51	12	18	45	22	1.83
4787434--4787466	15	2.2	15	89	10	50	48	12	18	21	1.80
4788245--4788376	29	4.7	29	74	9	128	39	26	6	28	1.80
4788246--4788400	84	1.8	84	88	2	240	41	24	6	27	1.79
4788413--4788446	18	1.9	18	94	5	61	11	23	47	17	1.81
4788423--4788473	13	3.9	13	78	0	66	15	21	45	17	1.86
4790549--4790599	26	1.9	27	84	4	68	35	23	5	35	1.79
4795654--4795694	18	2.3	18	95	0	73	12	21	48	17	1.79
4795648--4795677	13	2.3	13	88	0	51	16	23	43	16	1.87
4803364--4803432	36	1.9	36	82	5	86	36	17	15	30	1.91
4804171--4804231	27	2.3	27	80	5	70	19	8	21	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4805095--4805146	20	2.6	20	96	0	95	26	25	23	25	2.00
4805768--4805827	27	2.3	27	94	2	104	18	3	38	40	1.67
4807788--4807864	24	3.2	24	92	3	120	19	23	19	37	1.94
4808282--4808335	2	26.5	2	96	3	99	48	0	1	50	1.11
4809140--4809220	14	5.8	14	71	7	58	45	1	1	51	1.16
4809160--4809235	19	3.8	19	72	16	64	43	1	0	55	1.08
4809680--4809718	9	4.4	9	83	3	53	82	2	2	12	0.89
4809732--4809788	30	1.9	30	85	7	80	59	3	10	26	1.46
4809924--4810004	2	41.0	2	95	2	146	49	1	0	49	1.08
4810045--4810100	22	2.6	22	75	13	53	73	0	12	14	1.11
4810355--4810462	37	2.9	37	94	0	171	31	11	15	41	1.82
4811193--4811283	35	2.6	35	94	1	157	30	8	19	40	1.82
4811312--4811398	36	2.5	36	84	3	106	42	17	19	20	1.89
4811481--4811549	36	1.9	36	87	0	102	43	14	17	24	1.86
4811433--4811834	101	3.9	100	79	10	352	38	12	19	28	1.89
4811665--4811981	36	9.1	36	80	9	363	38	13	21	26	1.90
4811665--4811981	70	4.6	72	78	11	356	38	13	21	26	1.90
4811300--4811981	241	2.9	241	79	11	778	39	13	20	27	1.89
4813192--4813252	32	1.9	32	86	0	86	40	19	11	27	1.86
4813192--4813283	33	2.8	33	83	3	105	36	20	11	30	1.89
4814206--4814343	69	2.0	69	91	0	222	25	14	21	38	1.91
4814421--4814469	18	2.8	18	84	3	55	2	12	2	83	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4814416--4814470	17	3.2	18	82	10	62	1	12	1	83	0.80
4814415--4814470	28	2.0	28	93	6	96	3	12	1	82	0.88
4814401--4814470	10	6.8	10	71	12	52	4	14	1	80	0.94
4814401--4814470	17	4.1	16	77	17	61	4	14	1	80	0.94
4817485--4817536	21	2.3	21	83	9	59	71	7	5	15	1.29
4817534--4817575	18	2.5	17	82	14	52	64	4	4	26	1.33
4817711--4817762	2	26.0	2	100	0	104	50	0	0	50	1.00
4817768--4817797	2	15.0	2	100	0	60	0	0	50	50	1.00
4818096--4818207	37	3.0	37	90	0	179	33	15	12	39	1.85
4818329--4818386	2	29.0	2	100	0	116	50	0	0	50	1.00
4822788--4822823	2	18.5	2	94	5	65	50	0	0	50	1.00
4825437--4825465	15	1.9	15	100	0	58	48	0	10	41	1.37
4825565--4825613	19	2.3	22	76	20	59	40	2	2	55	1.23
4825778--4825820	20	2.0	21	86	13	61	55	2	0	41	1.12
4825770--4825897	65	2.0	63	86	8	179	53	1	7	36	1.39
4826030--4826083	27	2.0	27	100	0	108	25	14	11	48	1.77
4840872--4840938	21	3.7	18	77	22	61	31	2	0	65	1.07
4840877--4840927	16	3.1	16	75	25	52	35	3	0	60	1.15
4842654--4842751	21	4.7	21	79	2	90	32	33	14	19	1.92
4843774--4843809	18	2.1	18	90	10	58	36	11	25	27	1.90
4843812--4843988	95	1.9	95	83	7	234	38	13	19	27	1.90
4844335--4844838	54	9.3	54	90	1	706	35	20	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4847163--4847262	21	4.7	20	73	16	76	35	26	19	20	1.96
4847885--4847958	20	3.6	20	74	3	67	25	29	14	29	1.95
4854572--4854642	23	3.1	23	79	0	79	32	21	22	23	1.98
4857826--4857889	28	2.3	28	100	0	128	21	18	17	42	1.89
4861509--4861577	23	3.0	22	76	4	66	30	24	27	17	1.97
4862214--4862372	63	2.5	64	82	3	169	25	16	22	35	1.95
4862814--4862842	10	2.9	10	100	0	58	62	0	31	6	1.22
4866810--4866857	22	2.1	23	92	3	80	43	4	16	35	1.67
4875066--4875203	71	2.0	70	94	1	240	19	11	12	56	1.66
4875197--4875247	23	2.2	24	89	3	77	17	15	15	50	1.78
4885046--4885096	21	2.5	21	87	9	70	27	17	27	27	1.98
4894056--4894270	48	4.5	48	84	1	256	21	14	26	37	1.92
4895287--4895571	142	2.0	143	98	0	554	35	9	17	37	1.82
4896392--4896433	20	2.1	20	100	0	84	45	14	16	23	1.84
4898585--4898622	10	3.7	10	86	6	58	52	2	0	44	1.14
4898593--4898630	11	3.5	11	82	7	51	55	7	0	36	1.29
4898585--4898635	21	2.4	21	93	0	84	52	5	1	39	1.37
4905249--4905318	34	2.0	37	88	5	101	31	7	5	55	1.50
4905258--4905322	34	1.9	34	100	0	130	29	7	6	56	1.51
4911528--4911556	13	2.1	14	93	6	51	24	6	10	58	1.55
4914418--4914459	21	2.0	21	81	9	50	54	7	4	33	1.49
4914741--4914792	23	2.3	23	86	0	77	46	5	3	44	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4916670--4916702	13	2.6	13	85	4	50	75	3	21	0	0.93
4916667--4916702	17	2.2	16	90	5	54	75	2	22	0	0.94
4918770--4918813	2	22.0	2	100	0	88	50	0	0	50	1.00
4919168--4919232	23	2.8	23	78	0	85	32	24	23	20	1.98
4924537--4924569	17	1.9	17	88	11	50	54	0	9	36	1.32
4927100--4927159	31	1.9	31	89	0	93	31	15	21	31	1.94
4929731--4929791	27	2.3	25	81	18	70	37	1	1	59	1.17
4929839--4929877	17	2.2	18	90	4	62	46	0	0	53	1.00
4930008--4930065	25	2.3	26	75	3	64	46	0	0	53	1.00
4930048--4930083	11	3.2	12	92	7	58	47	0	0	52	1.00
4929995--4930145	40	3.7	39	75	20	134	45	1	0	52	1.08
4929991--4930145	81	1.9	83	83	12	205	45	1	0	52	1.08
4930045--4930123	23	3.6	22	75	16	83	45	2	0	51	1.14
4931671--4931701	2	15.5	2	93	0	53	51	3	0	45	1.17
4931693--4931773	36	2.2	36	89	6	128	48	6	4	40	1.50
4931761--4931790	2	15.0	2	100	0	60	50	0	0	50	1.00
4931687--4931944	38	6.7	38	76	18	223	47	4	5	42	1.47
4931724--4931826	50	2.1	48	91	7	163	49	3	3	42	1.39
4931664--4931857	88	2.2	87	88	6	277	47	4	4	42	1.44
4931740--4931848	50	2.2	50	85	6	141	48	4	4	42	1.44
4931866--4931915	12	4.2	12	74	5	57	42	6	6	46	1.53
4931876--4931922	23	2.1	23	92	4	78	44	4	4	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4931921--4931985	23	2.8	23	84	11	96	40	0	10	49	1.38
4931775--4932064	38	7.6	37	75	18	169	45	3	7	43	1.48
4932046--4932102	13	4.0	15	78	15	59	36	0	1	61	1.07
4932065--4932108	15	3.1	15	84	15	58	29	0	0	70	0.88
4932063--4932113	27	1.9	27	84	11	70	31	0	0	68	0.90
4932068--4932113	15	3.2	14	80	20	51	28	0	0	71	0.86
4932091--4932133	18	2.4	18	85	14	54	25	0	4	69	1.07
4933187--4933256	22	3.2	22	75	15	81	15	8	4	71	1.26
4933188--4933271	43	1.9	44	87	2	125	19	8	3	69	1.30
4933268--4933317	14	3.5	13	82	15	55	18	4	2	76	1.04

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