genome.fa.s8539.2.7.7.80.10.50.1000.23.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  23  of  31  ( 3630 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)
4424447--4424491	18	2.5	18	88	0	72	26	44	15	13	1.83
4424973--4425039	20	3.4	20	81	2	73	38	23	22	14	1.92
4425028--4425067	14	2.9	14	100	0	80	50	27	15	7	1.70
4425084--4425147	14	4.4	14	80	16	76	10	14	25	50	1.75
4425083--4425155	32	2.2	33	92	2	121	12	16	23	47	1.80
4425104--4425202	19	5.5	18	71	21	73	14	20	23	42	1.88
4427073--4427108	14	2.6	14	90	0	54	30	0	22	47	1.52
4427225--4427292	19	3.8	19	85	14	101	47	17	22	13	1.82
4427311--4427368	20	2.9	20	97	0	107	15	22	24	37	1.93
4428425--4428478	24	2.2	24	90	0	81	24	16	20	38	1.92
4428653--4428677	12	2.1	12	100	0	50	72	0	28	0	0.86
4430971--4431101	19	7.7	19	66	23	94	42	19	22	14	1.88
4430971--4431097	33	3.8	33	88	4	202	42	19	22	14	1.88
4430972--4431104	66	2.0	66	97	0	248	41	19	22	16	1.90
4431097--4431159	19	3.3	19	84	4	81	15	19	20	44	1.87
4431106--4431159	20	2.8	19	91	5	90	12	20	20	46	1.83
4431266--4431302	14	2.6	14	91	0	65	45	24	0	29	1.53
4432661--4432720	21	2.9	20	70	7	57	20	18	38	23	1.93
4432657--4432726	21	3.4	21	67	7	54	20	18	38	22	1.93
4432661--4432753	42	2.2	42	81	11	102	22	20	34	22	1.97
4434784--4434946	19	8.7	19	82	10	174	44	22	20	12	1.84
4434784--4434946	39	4.3	38	80	10	165	44	22	20	12	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4434950--4434990	19	2.2	19	90	0	64	4	17	24	53	1.63
4435546--4435598	20	2.7	20	93	0	88	26	20	28	24	1.99
4435607--4435660	20	2.7	20	91	0	90	27	18	22	31	1.97
4435547--4435681	61	2.2	61	80	2	146	23	20	23	32	1.98
4445244--4445279	14	2.5	14	90	4	54	38	2	0	58	1.13
4446061--4446102	21	2.0	20	86	4	57	54	11	0	33	1.37
4446953--4446985	17	2.0	17	88	5	50	60	15	15	9	1.58
4449227--4449263	19	1.9	19	94	0	65	32	29	16	21	1.95
4449289--4449378	20	4.4	20	72	13	76	31	25	20	23	1.98
4450197--4450250	24	2.2	24	96	0	99	20	16	20	42	1.89
4450450--4450476	14	1.9	14	100	0	54	44	29	18	7	1.77
4452706--4452836	20	6.8	20	79	10	148	33	20	19	25	1.97
4452734--4452871	34	3.9	34	77	13	134	35	22	19	22	1.96
4452706--4452871	74	2.2	74	86	2	226	34	21	19	24	1.96
4452872--4452937	20	3.3	20	86	0	78	13	15	24	46	1.81
4453005--4453123	36	3.6	36	70	21	125	52	15	3	29	1.59
4453011--4453142	63	2.1	63	97	0	246	53	15	3	28	1.57
4453122--4453153	14	2.3	14	100	0	64	46	18	0	34	1.49
4454532--4454649	21	5.6	21	70	9	71	23	16	35	24	1.94
4454532--4454650	42	2.8	41	77	9	132	24	15	35	24	1.95
4455259--4455311	20	2.7	20	91	2	81	13	18	18	49	1.80
4455320--4455364	20	2.2	20	84	0	54	24	20	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4457283--4457419	20	7.2	20	73	9	90	43	23	16	17	1.88
4457418--4457455	19	2.0	20	94	5	69	10	21	21	47	1.80
4457787--4457850	21	3.0	21	88	4	85	21	10	42	25	1.85
4457787--4457867	21	3.7	22	85	8	78	24	8	43	23	1.82
4458017--4458058	20	2.1	20	100	0	84	23	21	30	23	1.99
4458137--4458182	19	2.4	19	85	3	56	23	17	30	28	1.97
4458148--4458184	19	1.9	19	94	0	65	21	16	29	32	1.95
4458420--4458627	86	2.4	89	83	6	271	50	5	7	36	1.55
4459258--4459344	31	2.8	31	96	0	156	32	26	18	22	1.97
4460671--4460823	20	7.6	20	85	4	155	31	23	13	32	1.93
4460671--4460843	61	2.9	60	80	8	172	31	23	12	32	1.92
4460732--4460844	20	5.6	19	81	10	100	34	23	11	30	1.90
4460726--4460844	41	2.9	41	82	7	127	33	23	10	31	1.89
4461000--4461037	16	2.5	15	84	12	51	28	5	0	65	1.14
4461772--4461827	24	2.3	24	87	0	76	30	19	14	35	1.91
4464601--4464650	25	2.0	25	88	0	73	26	6	20	48	1.72
4465036--4465072	18	2.1	18	89	0	56	32	5	10	51	1.60
4465034--4465080	24	2.0	24	86	0	67	36	4	10	48	1.57
4466951--4467000	22	2.2	22	82	10	57	76	4	0	20	0.95
4467234--4467272	20	2.0	20	85	5	53	46	12	15	25	1.81
4467242--4467284	20	2.2	20	87	4	61	41	16	20	20	1.90
4467295--4467346	20	2.6	20	90	0	86	21	19	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4469461--4469499	2	19.5	2	100	0	78	51	0	0	48	1.00
4472363--4472507	68	2.1	70	81	13	167	70	2	6	20	1.22
4472450--4472547	45	2.2	45	83	10	121	76	5	6	12	1.13
4472464--4472805	6	54.7	6	66	20	82	71	2	4	20	1.16
4472391--4472549	74	2.1	74	80	8	173	74	4	6	15	1.18
4472581--4472743	3	56.7	3	71	16	89	70	1	3	25	1.09
4472618--4472790	31	5.5	30	70	23	90	72	2	2	21	1.09
4472596--4472812	20	10.4	21	68	20	100	71	1	2	23	1.08
4472611--4472826	13	15.6	14	69	23	88	72	1	3	21	1.10
4472773--4472827	24	2.3	24	84	9	69	76	0	5	18	0.97
4473465--4473507	23	1.9	22	85	4	59	20	16	16	46	1.84
4474353--4474585	85	2.7	84	83	2	304	24	17	21	36	1.94
4474727--4474887	65	2.6	61	80	6	198	26	15	21	36	1.93
4474855--4474955	37	2.7	37	96	0	184	26	18	23	30	1.98
4474922--4475269	124	2.8	124	91	0	552	24	14	26	34	1.94
4475231--4475407	65	2.8	64	84	7	229	27	15	20	36	1.92
4475421--4475715	64	4.6	64	89	0	446	30	13	21	35	1.92
4476609--4477031	99	4.5	90	87	6	392	29	18	19	32	1.96
4476659--4477056	99	4.0	99	92	0	638	29	18	19	33	1.95
4481219--4481288	15	4.2	16	75	17	72	78	1	2	17	0.94
4481213--4481287	11	6.4	12	79	14	68	77	2	2	17	1.00
4485402--4485569	60	2.8	59	84	8	216	33	23	4	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4485691--4485867	60	3.0	60	77	12	182	39	5	21	33	1.75
4486051--4486110	31	1.9	31	89	0	93	38	8	10	43	1.68
4486554--4486602	19	2.5	19	80	3	53	34	30	12	22	1.91
4486573--4486700	20	6.3	21	71	8	77	32	26	13	27	1.93
4486652--4486765	40	2.8	40	78	1	120	29	23	14	32	1.94
4486611--4486764	20	7.6	20	72	12	91	29	23	14	31	1.95
4490365--4490398	14	2.4	14	95	0	59	50	20	0	29	1.49
4490301--4490477	78	2.3	77	91	1	284	51	18	1	28	1.56
4490443--4490488	13	3.5	13	96	3	83	47	21	0	30	1.51
4491810--4491889	42	1.9	42	84	0	106	28	18	27	25	1.98
4494359--4494416	22	2.7	21	89	5	64	22	10	44	22	1.82
4494366--4494416	22	2.3	22	96	0	93	19	11	45	23	1.83
4494909--4494960	21	2.3	23	81	15	65	55	0	1	42	1.10
4494929--4495031	14	7.9	13	69	19	63	54	0	0	44	1.06
4494927--4494998	23	2.9	24	79	12	74	55	0	0	44	0.99
4494926--4495084	63	2.6	63	90	7	247	56	1	0	42	1.07
4494947--4495029	40	2.2	36	85	12	105	54	1	0	44	1.08
4494980--4495061	24	3.2	26	81	13	100	56	1	0	42	1.07
4494923--4495092	12	14.7	11	66	18	62	57	1	0	41	1.11
4500139--4500164	13	2.0	13	100	0	52	53	15	23	7	1.67
4500781--4500818	20	1.9	20	89	10	60	47	15	5	31	1.68
4502362--4502428	33	2.0	33	94	0	116	40	5	8	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4502974--4503016	21	2.0	21	81	0	50	30	30	25	13	1.94
4504609--4504676	23	3.0	23	80	0	82	20	26	23	29	1.99
4508329--4508371	21	2.0	21	81	0	50	30	30	25	13	1.94
4509915--4509981	23	2.9	23	79	0	80	20	26	22	29	1.99
4510279--4510314	8	4.5	8	90	10	56	55	0	22	22	1.44
4511557--4511631	30	2.6	30	83	8	93	64	2	0	33	1.08
4521105--4521285	91	2.0	89	92	2	299	52	9	11	27	1.67
4521442--4521493	2	26.0	2	96	0	95	48	1	0	50	1.12
4522082--4522130	20	2.4	20	86	3	71	20	8	0	71	1.11
4525285--4525369	41	2.1	41	100	0	170	28	35	9	27	1.88

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