genome.fa.s7931.2.7.7.80.10.50.1000.3.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: VEPZ01007931.1 Hibiscus syriacus cultivar Beakdansim tig00110339_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2341804

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1358 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)
344494--344541	19	2.5	20	82	3	62	29	12	6	52	1.63
346124--346157	13	2.5	13	95	4	59	82	5	11	0	0.83
346131--346170	20	2.0	20	85	5	53	80	10	10	0	0.92
355631--355674	2	22.0	2	100	0	88	50	0	0	50	1.00
360891--361048	79	2.0	79	86	1	217	47	4	7	40	1.52
361826--361996	12	14.6	11	78	11	105	38	11	0	50	1.42
361865--361928	6	10.7	6	98	0	119	35	14	0	50	1.43
361826--361996	16	10.2	17	76	14	101	38	11	0	50	1.42
361826--361996	6	28.5	6	77	12	84	38	11	0	50	1.42
361826--361995	18	8.9	19	80	7	98	37	11	0	50	1.42
362526--362557	16	2.0	16	93	0	55	43	3	12	40	1.58
362516--362583	22	3.0	22	75	14	57	44	5	8	41	1.60
362645--362695	2	25.5	2	100	0	102	49	0	0	50	1.00
365933--365978	18	2.6	18	75	0	56	47	6	39	6	1.55
365995--366068	34	2.2	34	100	0	148	35	13	20	31	1.91
366195--366239	18	2.5	18	77	0	54	46	6	40	6	1.56
377877--377937	23	2.7	23	84	0	86	32	26	21	19	1.97
385518--385679	63	2.5	65	80	6	154	26	18	20	33	1.96
386607--386665	30	2.0	30	96	0	109	45	16	20	16	1.85
392380--393305	199	4.7	193	82	8	946	39	14	14	31	1.86
393613--393672	18	3.5	17	72	22	63	21	43	6	28	1.78
394458--394692	121	1.9	121	95	0	425	37	15	26	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396279--396323	24	1.9	23	90	4	72	31	2	15	51	1.56
396291--396327	18	2.1	18	89	0	56	32	5	10	51	1.60
396283--396335	24	2.2	24	86	0	70	33	5	13	47	1.66
397098--397633	200	2.7	198	87	3	761	37	14	16	31	1.88
400167--400217	23	2.2	23	85	0	66	33	21	7	37	1.82
400177--400226	23	2.2	23	88	0	73	34	18	10	38	1.84
400022--400397	158	2.4	158	87	1	520	32	13	13	40	1.83
406924--406996	7	10.4	7	100	0	146	56	15	28	0	1.40
411640--411717	25	3.1	25	66	14	70	47	3	2	46	1.34
411876--411985	41	2.6	43	82	14	124	59	4	6	30	1.43
412073--412193	29	4.2	29	78	12	117	53	0	4	42	1.20
412026--412193	88	1.9	88	80	10	195	52	1	3	42	1.29
412942--413124	60	3.1	59	79	7	201	33	20	3	42	1.69
413258--413437	60	3.0	59	83	6	186	38	5	22	33	1.77
413307--413400	29	3.2	28	70	19	75	41	4	19	35	1.71
417842--417913	17	4.2	17	80	3	81	43	6	12	37	1.70
425049--425081	15	2.2	15	94	0	57	45	0	0	54	0.99
427746--427781	6	5.7	6	87	12	54	80	0	0	19	0.71
428024--428738	84	8.5	84	86	1	907	23	19	25	31	1.98
437791--437829	13	3.0	13	88	0	60	33	17	23	25	1.96
438225--438298	12	6.2	12	91	0	103	8	24	16	51	1.71
438225--438294	4	17.5	4	81	0	86	7	24	17	51	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446048--446221	85	2.0	85	90	4	271	29	20	18	31	1.97
455805--455832	14	2.0	14	100	0	56	35	35	14	14	1.86
459197--459411	57	3.8	57	80	11	219	32	9	18	40	1.83
459411--460170	240	3.2	240	85	1	999	31	15	17	36	1.91
459957--460366	195	2.1	196	84	6	521	33	14	17	35	1.90
459717--460572	435	2.0	434	85	4	1170	32	14	16	36	1.89
460152--460695	240	2.3	238	85	4	729	31	16	16	35	1.91
465414--465520	45	2.4	45	84	7	128	30	21	18	28	1.97
467647--467691	22	2.0	22	100	0	90	35	8	8	46	1.66
471342--471422	24	3.6	22	72	14	76	22	24	23	29	1.99
474160--474201	21	2.0	21	90	0	66	26	21	28	23	1.99
477928--477968	7	6.1	7	80	11	50	82	0	12	4	0.81
477928--477968	13	3.2	13	83	13	57	82	0	12	4	0.81
477949--477999	18	2.8	18	84	0	66	72	0	11	15	1.12
478039--478293	108	2.4	109	78	5	259	20	15	16	48	1.81
480284--480323	20	2.0	20	95	0	71	35	25	7	32	1.84
489562--489636	39	1.9	38	89	2	114	25	8	24	42	1.81
489634--489841	37	5.9	35	71	17	155	40	12	20	26	1.88
489818--489896	28	2.8	28	100	0	158	43	17	22	16	1.88
491093--491150	24	2.5	22	76	13	55	51	5	12	31	1.61
491879--492016	69	2.0	69	91	0	222	24	12	23	39	1.89
492077--492129	24	2.2	25	86	3	72	5	15	3	75	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492077--492147	25	2.8	26	80	18	87	4	16	2	76	1.07
492099--492141	15	3.1	14	83	9	61	2	11	2	83	0.83
492089--492149	12	5.0	12	77	15	63	1	14	3	80	0.92
492125--492154	10	2.9	10	95	5	51	0	16	3	80	0.85
492099--492152	27	2.0	27	85	7	74	1	12	3	81	0.91
493351--493401	27	1.9	26	84	11	68	49	5	15	29	1.68
506135--506213	3	26.7	3	77	16	76	32	1	1	64	1.09
511671--511717	15	3.1	15	93	0	76	29	17	2	51	1.57
518944--519011	14	4.5	15	78	14	61	82	1	10	5	0.90
518944--518998	22	2.5	22	84	3	74	83	1	10	3	0.84
518956--519014	22	2.7	22	82	7	68	81	1	8	8	0.95
519359--519396	18	2.1	18	100	0	76	31	10	5	52	1.58
520017--520114	44	2.2	44	87	3	135	35	16	12	35	1.86
520017--520123	22	4.9	22	84	6	119	37	14	13	34	1.85
520491--520554	20	3.2	20	63	20	53	42	9	23	25	1.84
520614--520677	20	3.2	20	63	20	53	42	9	23	25	1.84
520471--521166	123	5.7	123	92	2	1120	40	14	18	25	1.90
520860--520923	20	3.2	20	61	12	51	43	10	20	25	1.84
521524--521611	3	29.7	3	82	11	110	34	1	1	63	1.09
522919--522999	41	2.0	41	80	9	94	28	2	4	64	1.27
525411--525458	21	2.3	21	96	0	87	27	18	12	41	1.86
529953--530000	21	2.3	21	96	0	87	27	18	12	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531792--531834	22	2.0	22	100	0	86	46	0	9	44	1.35
533842--533893	23	2.3	23	79	0	68	38	19	19	23	1.93
537978--538067	45	2.0	45	100	0	180	24	24	11	40	1.87
538949--538987	17	2.2	17	86	4	51	25	23	20	30	1.98
541165--541215	27	1.9	26	88	4	75	29	25	17	27	1.98
542023--542055	17	1.9	17	93	0	57	3	9	6	81	0.95
551125--551168	7	6.4	7	78	5	54	79	0	2	18	0.83
553119--553241	42	3.0	41	77	5	122	31	22	18	26	1.97
553579--553630	24	2.2	24	92	0	86	40	7	11	40	1.70
553105--553910	301	2.7	300	81	7	943	34	19	15	30	1.93
553714--553827	42	2.7	41	70	6	104	31	21	20	27	1.98
555556--555616	18	3.5	17	82	10	70	75	1	3	19	1.03
555557--555630	11	6.9	11	73	15	57	75	2	2	18	1.04
557070--557118	23	2.1	23	84	0	62	12	6	38	42	1.67
565447--565745	85	3.5	84	90	1	438	31	18	20	29	1.96
570350--570389	21	1.9	21	84	0	53	30	2	15	52	1.55
571822--571885	21	3.1	21	75	4	76	17	17	26	39	1.91
571874--571986	22	5.4	22	76	10	103	18	16	23	40	1.91
571895--571942	19	2.5	19	89	0	78	18	16	18	45	1.85
572734--572866	41	3.2	41	85	4	194	39	21	18	21	1.93
572752--572866	22	5.4	22	71	12	105	39	23	17	20	1.92
573607--573711	31	3.4	31	80	5	124	39	15	2	42	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575826--575874	21	2.3	21	96	0	89	28	34	16	20	1.94
586405--586459	14	3.9	14	83	7	67	74	7	0	18	1.04
586408--586446	13	2.9	13	84	3	51	74	7	0	17	1.05
591181--591205	12	2.1	12	100	0	50	32	8	24	36	1.84
592110--592508	44	9.2	44	88	3	587	40	12	22	24	1.89
592133--592463	169	2.0	169	93	1	565	40	12	22	24	1.89
592110--592508	213	1.9	213	91	1	656	40	12	22	24	1.89
598725--598795	22	3.3	22	71	15	67	35	11	25	28	1.90
598707--598822	42	2.8	42	77	6	112	33	12	26	26	1.93
599223--599540	44	7.2	44	92	1	496	40	12	22	24	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12