genome.fa.s8440.2.7.7.80.10.50.1000.2.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: VEPZ01008440.1 Hibiscus syriacus cultivar Beakdansim tig00111239_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  518054

Tables:   1   2   3   

This is table  2  of  3  ( 273 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)
235417--235450	17	2.0	17	88	11	52	35	0	0	64	0.94
235723--235773	20	2.5	20	96	0	93	23	29	23	23	1.99
236948--237011	17	3.4	17	70	25	56	42	3	0	54	1.16
236939--237011	21	3.5	21	80	12	96	42	2	0	54	1.14
236936--237029	22	4.3	23	77	13	76	40	2	0	57	1.11
236945--237029	41	2.0	43	95	4	156	41	2	0	56	1.12
238456--238525	28	2.5	28	97	0	131	40	15	18	25	1.90
238751--238832	28	2.9	28	66	10	67	34	6	24	35	1.80
238694--238846	57	2.6	57	85	8	184	33	7	24	34	1.83
240435--240782	171	2.0	174	97	2	657	36	12	17	33	1.87
244868--244960	48	2.0	46	91	4	150	30	10	9	49	1.70
247435--247461	4	6.8	4	100	0	54	48	25	0	25	1.52
249339--249377	16	2.4	16	95	4	69	48	10	35	5	1.59
255785--256109	128	2.6	126	80	3	348	43	16	11	28	1.83
258142--258203	31	2.0	31	93	0	106	37	14	4	43	1.67
258583--258644	10	6.5	10	74	20	53	40	0	4	54	1.22
258577--258639	23	2.7	23	72	16	58	42	0	4	52	1.22
258966--259010	22	2.0	23	86	4	65	51	0	4	44	1.21
264098--264133	2	18.0	2	100	0	72	50	0	0	50	1.00
264268--264589	54	6.0	54	89	0	491	34	20	18	26	1.96
264877--264950	22	3.5	22	88	3	107	28	28	12	31	1.93
264936--265120	94	2.0	95	90	1	291	27	25	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267940--267967	2	14.0	2	100	0	56	50	0	0	50	1.00
268093--268312	54	4.1	54	88	2	343	32	19	20	27	1.97
268068--268312	108	2.3	108	84	4	280	31	19	20	28	1.97
285552--285653	24	4.2	24	72	7	82	47	16	14	21	1.83
285543--285653	48	2.3	48	81	6	118	48	16	13	21	1.80
285696--286588	442	2.0	446	91	1	1447	33	18	13	34	1.90
288424--288460	14	2.6	14	86	0	56	27	35	21	16	1.94
289978--290031	26	2.1	26	92	0	90	35	29	14	20	1.93
291528--292906	691	2.0	698	93	2	2393	32	16	11	39	1.85
298397--298462	2	33.0	2	100	0	132	50	0	0	50	1.00
304394--304437	17	2.5	17	88	3	61	34	4	0	61	1.16
304393--304451	17	3.3	18	79	9	59	35	3	1	59	1.24
304963--305060	29	3.3	28	70	21	83	40	5	20	33	1.74
309539--309660	32	3.8	32	81	0	127	27	25	28	18	1.98
311221--311275	22	2.6	20	82	8	65	30	23	18	27	1.97
311221--311273	21	2.5	21	81	9	63	30	24	18	26	1.98
318828--319144	151	2.1	149	92	2	528	28	16	20	34	1.94
319112--319156	23	2.0	23	90	0	72	22	26	26	24	2.00
323835--324149	149	2.1	149	95	1	569	27	17	20	34	1.95
324117--324161	23	2.0	23	90	0	72	22	26	26	24	2.00
326435--326494	20	3.0	20	92	4	95	21	20	31	26	1.98
326929--326975	19	2.3	20	89	10	78	21	42	0	36	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
332538--332577	21	1.9	21	89	0	62	30	7	7	55	1.56
335038--335105	34	2.0	34	86	13	95	23	23	16	36	1.94
336953--337050	4	26.5	4	71	15	77	51	0	0	48	1.00
336953--337050	6	17.7	6	78	16	77	51	0	0	48	1.00
336953--337054	44	2.3	44	85	8	154	51	0	0	48	1.00
337116--337190	35	2.1	35	87	4	107	20	37	12	30	1.89
339024--339068	16	2.8	16	100	0	90	31	20	13	35	1.91
339982--340006	2	12.5	2	100	0	50	48	0	0	52	1.00
341124--341158	15	2.3	15	90	9	54	2	11	2	82	0.88
343539--343595	27	2.1	27	96	0	105	49	0	7	43	1.29
345452--345490	14	2.6	14	88	8	51	30	2	12	53	1.52
345450--345495	16	2.9	16	90	0	74	30	2	13	54	1.50
349542--349595	5	10.8	5	74	21	51	77	1	1	18	0.95
349543--349595	9	5.9	9	77	22	58	77	1	1	18	0.96
349540--349601	17	3.5	17	83	14	81	77	3	1	17	0.98
352092--352172	22	3.6	22	96	1	144	24	29	27	18	1.98
352106--352168	10	5.5	13	65	27	52	26	26	26	19	1.99
352474--352543	27	2.5	28	90	4	106	38	12	10	38	1.77
352847--352884	20	1.9	20	88	0	58	10	31	34	23	1.89
352910--352952	21	2.0	21	86	0	59	16	25	27	30	1.97
358984--359063	22	3.6	22	98	0	151	25	28	27	18	1.98
358997--359059	10	5.5	13	65	27	52	26	26	26	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359365--359436	29	2.5	29	93	0	117	38	12	9	38	1.76
359740--359777	20	1.9	20	88	0	58	10	31	34	23	1.89
359803--359845	21	2.0	21	86	0	59	16	25	27	30	1.97
361035--362463	106	13.5	106	91	1	2276	23	18	24	33	1.97
366097--366151	5	11.8	5	75	21	57	78	1	1	18	0.94
366098--366151	13	3.9	14	81	11	67	77	1	1	18	0.95
366095--366157	18	3.5	17	85	8	81	77	3	1	17	0.97
366097--366151	23	2.4	24	84	9	78	78	1	1	18	0.94
380207--380320	57	2.0	58	85	1	158	34	17	4	43	1.69
383106--383244	60	2.3	60	84	0	188	33	27	3	35	1.74
383415--383527	60	1.9	59	81	7	138	37	5	24	32	1.78
383415--383589	60	2.9	57	78	11	131	41	5	20	33	1.74
384176--384220	23	2.0	23	86	0	63	42	8	15	33	1.78
384402--384941	200	2.7	200	88	0	778	30	13	15	40	1.86
387885--387930	6	7.7	6	92	0	65	21	32	2	43	1.65
389425--390382	200	4.8	200	88	1	1271	31	15	14	38	1.88
390832--390878	19	2.5	19	89	0	67	51	10	4	34	1.56
392702--392737	19	2.0	18	89	10	56	30	19	27	22	1.98
392703--392862	64	2.5	63	84	6	198	35	18	20	25	1.95
393351--393386	17	2.0	19	89	10	58	44	5	11	38	1.63
393574--393649	30	2.5	30	82	2	89	19	19	26	34	1.96
396897--397048	64	2.4	63	83	6	182	36	18	19	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397699--397806	31	3.5	31	79	3	103	24	18	22	35	1.96
397721--397825	31	3.4	30	79	6	86	24	18	23	33	1.97
401768--402432	182	3.7	182	87	1	931	27	15	12	43	1.83
402598--402639	21	2.0	21	95	0	75	19	21	30	28	1.97
403404--403472	6	11.5	6	98	0	120	0	15	47	36	1.46
403569--403734	21	7.8	21	73	16	146	36	24	19	19	1.95
403565--403761	42	4.7	42	94	1	326	36	23	19	20	1.95
403569--403761	21	9.3	19	70	15	116	36	23	19	20	1.95
403757--403809	21	2.5	21	96	0	97	15	20	32	32	1.93
412984--413088	48	2.2	48	94	0	183	21	23	14	40	1.90
415369--415462	29	3.2	29	68	5	89	36	12	3	47	1.58
415344--415462	60	2.0	60	94	0	211	35	12	5	47	1.64
415767--415883	61	1.9	61	81	6	139	52	5	7	35	1.52
416320--416380	29	2.1	30	93	3	106	16	9	16	57	1.64
417005--417061	29	1.9	30	89	3	89	49	19	15	15	1.80
421683--422173	55	9.0	55	85	4	539	30	23	16	29	1.96
421683--422182	272	1.8	272	82	4	639	29	23	17	29	1.97
422175--422277	54	1.9	54	97	0	197	19	26	16	37	1.92
422654--422769	37	3.2	37	78	8	112	27	19	18	33	1.96
422682--422777	36	2.6	36	85	1	129	22	19	21	35	1.96
423945--424190	125	2.0	126	82	2	307	26	24	15	32	1.96
427485--427635	72	2.1	72	92	0	248	23	25	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428317--428481	55	3.0	55	93	0	276	23	21	12	42	1.86
428795--428882	46	1.9	45	84	9	115	36	22	11	29	1.89
435086--435129	23	1.9	23	86	9	63	29	29	9	31	1.88
444149--444302	31	5.0	31	94	1	247	37	21	20	20	1.94
445434--445469	13	2.6	15	79	20	51	61	0	36	2	1.11
448521--448674	31	5.0	31	94	1	247	37	21	20	20	1.94
449808--449843	13	2.6	15	79	20	51	61	0	36	2	1.11
452782--452825	23	1.9	23	90	0	70	31	29	9	29	1.88
455796--455976	59	3.1	59	82	4	222	35	20	2	40	1.67
457426--457469	12	3.7	12	81	0	52	27	0	61	11	1.30

Tables:   1   2   3