genome.fa.s8690.2.7.7.80.10.50.1000.2.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: VEPZ01008690.1 Hibiscus syriacus cultivar Beakdansim tig00111718_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  531595

Tables:   1   2   3   

This is table  2  of  3  ( 276 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)
218003--218034	4	8.0	4	100	0	64	50	0	25	25	1.50
222318--222366	16	3.1	16	79	8	55	55	4	0	40	1.19
222469--222508	21	1.9	21	89	0	62	42	2	7	47	1.45
222895--222981	45	1.9	45	88	4	131	21	11	22	43	1.85
224440--224517	39	2.0	39	97	0	147	30	8	14	46	1.75
224451--224515	21	3.2	21	71	20	75	26	9	15	49	1.74
232353--232432	41	2.0	41	94	0	142	41	8	18	31	1.81
236207--236274	25	2.7	25	83	0	82	29	17	23	29	1.97
241484--241614	31	4.3	29	67	17	70	45	0	6	48	1.27
241584--241634	23	2.2	23	82	0	57	45	1	1	50	1.24
241815--241877	23	2.8	22	80	7	65	53	0	1	44	1.10
241814--241870	22	2.6	22	81	10	64	54	0	1	43	1.10
242093--242166	38	1.9	38	94	0	130	47	14	17	20	1.83
244849--244891	3	15.0	3	90	9	72	34	0	30	34	1.58
244849--244888	11	3.5	11	96	3	71	35	0	30	35	1.58
244849--244891	14	3.0	15	90	10	72	34	0	30	34	1.58
245193--245511	157	2.0	157	100	0	638	58	6	9	25	1.53
247465--247540	27	2.7	28	82	15	102	32	7	7	51	1.60
247554--247610	26	2.1	27	87	3	80	29	7	17	45	1.75
260000--260057	2	29.0	2	96	0	107	48	0	0	51	1.00
261658--261696	20	2.0	20	100	0	78	10	35	20	33	1.86
275645--275670	5	5.2	5	100	0	52	19	0	19	61	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
276154--276227	30	2.5	30	93	0	121	36	10	31	21	1.88
278400--278468	12	5.8	12	70	23	56	79	2	1	15	0.92
278395--278468	22	3.4	22	81	7	80	79	2	1	16	0.91
278395--278461	27	2.5	27	88	7	93	79	2	1	16	0.94
278395--278461	5	12.8	5	76	20	66	79	2	1	16	0.94
278415--278471	13	4.1	13	78	14	60	80	1	0	17	0.79
279605--279648	20	2.2	20	95	0	79	47	20	2	29	1.62
281098--281138	21	2.0	21	95	0	73	31	0	4	63	1.15
283658--283683	2	13.0	2	100	0	52	50	0	0	50	1.00
287198--287232	6	5.8	6	96	0	52	0	60	0	40	0.97
287196--287233	12	3.2	12	88	0	58	0	57	0	42	0.98
288739--288780	22	1.9	22	85	0	57	23	11	9	54	1.66
292607--292638	11	2.8	12	90	9	57	53	0	9	37	1.34
296629--296698	13	5.4	13	73	13	63	65	12	2	18	1.38
296636--296724	26	3.5	26	89	6	128	64	12	3	20	1.42
296827--296858	3	10.7	3	93	0	55	31	37	0	31	1.58
298545--298578	9	3.9	9	84	7	52	61	2	0	35	1.11
298541--298585	17	2.8	16	90	6	72	64	2	0	33	1.06
305054--305082	13	2.1	14	93	6	51	48	3	0	48	1.18
305561--305595	2	17.5	2	100	0	70	51	0	0	48	1.00
308088--308136	25	2.0	24	88	7	73	38	0	22	38	1.54
311647--311679	3	11.3	3	93	6	59	69	0	30	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319326--319354	7	4.1	7	100	0	58	27	31	13	27	1.94
321363--321390	2	14.0	2	100	0	56	0	0	50	50	1.00
321245--321523	144	1.9	144	98	0	540	19	7	32	40	1.79
321507--321578	4	18.0	4	94	0	63	1	11	48	38	1.47
339840--339982	68	2.1	68	89	2	216	30	1	12	55	1.45
342671--342703	13	2.5	13	100	0	66	45	9	9	36	1.68
344590--344671	21	3.8	21	80	13	85	20	24	30	24	1.99
344605--344670	23	2.9	22	86	6	87	22	24	30	22	1.99
348477--348516	21	1.9	21	85	10	55	35	10	2	52	1.48
352611--352656	20	2.3	20	85	10	60	36	28	0	34	1.58
360035--360074	21	1.9	21	89	0	62	25	40	25	10	1.86
362280--362369	44	2.0	45	97	2	173	45	2	23	28	1.65
369247--369311	3	23.7	3	73	20	54	36	0	0	63	0.95
369247--369292	22	2.1	21	92	4	74	32	0	0	67	0.91
369261--369311	18	2.6	20	84	12	70	39	0	0	60	0.97
370854--370893	19	2.2	18	86	4	53	37	0	0	62	0.95
378462--378544	44	2.0	42	88	9	125	18	3	9	68	1.32
380480--380630	47	3.2	46	84	3	194	25	3	7	63	1.37
380711--380742	16	2.0	16	93	0	55	34	25	15	25	1.95
390335--390359	12	2.1	12	100	0	50	84	8	0	8	0.79
397068--397094	11	2.5	11	100	0	54	70	0	0	29	0.88
397023--397201	97	1.8	99	88	7	276	50	6	2	40	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397830--397916	44	2.0	41	85	10	113	49	1	0	49	1.08
402535--402565	14	2.3	14	94	5	55	35	25	3	35	1.72
405870--405957	33	2.6	33	83	7	106	63	13	2	20	1.40
408081--408126	19	2.5	17	80	13	56	60	2	0	36	1.09
408228--408269	17	2.4	19	80	15	54	64	2	0	33	1.07
408213--408290	24	3.3	23	70	24	56	66	1	0	32	1.00
409268--409672	202	2.0	202	99	0	801	40	14	21	24	1.90
417015--417044	4	7.2	4	92	7	51	73	0	0	26	0.84
417015--417044	13	2.4	12	89	10	51	73	0	0	26	0.84
418394--418476	39	2.1	39	97	0	157	26	13	39	20	1.89
424460--424507	20	2.6	19	80	9	55	54	4	0	41	1.20
424850--424999	65	2.3	64	83	8	180	54	7	2	36	1.43
429165--429205	21	2.0	21	95	0	73	17	14	4	63	1.47
429569--429624	27	2.1	27	86	6	78	26	8	14	50	1.72
429699--429762	12	5.7	12	70	19	57	53	0	0	46	1.00
429694--429736	20	2.2	20	95	0	77	62	0	0	37	0.95
429991--430037	2	23.5	2	100	0	94	51	0	0	48	1.00
434418--434451	10	3.1	11	88	12	52	35	0	0	64	0.94
435584--435688	20	5.2	20	92	0	174	21	19	27	31	1.97
435715--435769	21	2.6	21	85	0	83	29	21	21	27	1.99
437833--437899	35	1.9	35	87	0	98	40	8	13	37	1.76
438122--438184	32	2.0	32	84	6	83	47	7	7	36	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449601--449635	15	2.3	15	90	9	54	28	34	20	17	1.95
450240--450307	34	2.0	34	94	0	118	22	27	30	19	1.97
450252--450310	20	3.2	20	61	34	51	16	37	28	16	1.92
452783--452820	17	2.2	17	100	0	76	44	7	10	36	1.68
453499--453525	2	13.5	2	100	0	54	48	0	0	51	1.00
455867--455894	14	2.0	14	100	0	56	14	14	14	57	1.66
476129--476233	46	2.3	45	81	4	113	33	17	18	31	1.94
476174--476299	64	2.0	65	90	1	200	30	23	16	29	1.96
481828--481909	24	3.5	24	65	15	64	24	23	19	32	1.97
481832--481944	45	2.5	45	92	4	185	25	22	20	31	1.98
482902--484035	565	2.0	565	100	0	2268	31	18	17	32	1.94
486040--486087	26	1.9	24	84	16	62	50	12	4	33	1.59
487869--487909	21	2.0	21	85	0	55	68	0	0	31	0.90
488161--488235	38	2.0	37	84	5	98	48	4	1	46	1.29
489445--489496	21	2.5	21	81	3	61	38	19	25	17	1.93
489527--489579	20	2.7	20	90	0	79	24	26	20	28	1.99
490099--490138	19	2.1	19	90	0	62	55	25	15	5	1.60
490134--490202	19	3.6	19	84	9	95	14	18	21	44	1.85
490146--490200	20	2.8	19	89	5	83	10	18	20	50	1.76
490139--490215	39	2.0	39	82	10	95	11	18	24	45	1.82
490187--490274	33	2.6	33	92	1	140	11	25	25	38	1.89
490242--490299	20	2.9	20	80	10	64	13	24	18	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492288--492380	42	2.2	42	80	0	105	21	37	16	24	1.93
493769--493804	14	2.6	14	95	0	63	30	0	25	44	1.54
493987--494113	33	3.9	32	85	8	175	14	22	18	44	1.87
493989--494113	19	7.4	19	62	24	73	15	21	18	44	1.86
493980--494112	66	2.0	66	94	0	230	16	21	18	43	1.88
496406--496430	12	2.1	12	100	0	50	0	28	0	72	0.86
496605--496658	24	2.2	24	90	0	81	38	20	16	24	1.92
497715--497772	20	2.9	20	97	0	107	37	24	22	15	1.93
497791--497858	19	3.8	19	81	12	83	14	20	16	48	1.81
497975--498011	14	2.6	14	86	0	56	48	21	0	29	1.50

Tables:   1   2   3