genome.fa.s7994.2.7.7.80.10.50.1000.2.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: VEPZ01007994.1 Hibiscus syriacus cultivar Beakdansim tig00110444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  788627

Tables:   1   2   3   4   

This is table  2  of  4  ( 367 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)
267118--267157	20	2.0	20	85	0	53	30	20	17	32	1.95
269351--269390	21	1.9	21	94	0	71	32	30	15	22	1.94
269371--269496	64	2.0	64	81	10	150	33	22	15	29	1.94
269371--269514	64	2.2	64	79	8	141	34	21	15	28	1.94
269538--269580	19	2.4	19	84	7	54	23	27	20	27	1.99
274833--274998	64	2.6	63	80	6	174	29	24	16	29	1.97
277069--277117	20	2.4	21	76	10	57	28	14	24	32	1.94
277163--277202	20	2.0	20	95	0	71	32	22	15	30	1.94
277434--277473	20	2.0	20	100	0	80	30	10	10	50	1.69
281531--281708	76	2.3	76	88	1	250	19	22	32	25	1.97
283550--283585	15	2.4	15	100	0	72	30	0	38	30	1.58
284331--284367	19	1.9	19	88	0	56	13	27	37	21	1.91
290089--290296	75	2.8	77	88	2	298	19	23	32	25	1.98
293528--293597	24	2.9	24	80	0	86	51	17	14	17	1.77
293541--293597	12	4.8	12	74	8	62	49	17	15	17	1.81
293557--293634	24	3.2	24	76	7	70	46	16	16	20	1.85
296107--296155	23	2.1	23	100	0	98	12	20	48	18	1.79
298005--298033	14	2.1	14	100	0	58	44	13	6	34	1.71
298031--298076	24	1.9	24	90	0	74	54	13	10	21	1.69
300506--300569	18	3.6	18	91	0	83	12	20	48	18	1.80
300500--300547	13	3.3	13	75	25	51	12	22	45	18	1.83
302527--302734	104	2.0	105	90	8	334	40	31	9	18	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302883--302962	24	3.3	24	85	0	106	52	16	6	25	1.66
302883--302962	36	2.2	37	80	6	101	52	16	6	25	1.66
309692--309731	20	2.0	20	95	0	71	32	15	17	35	1.91
312923--312971	20	2.4	21	83	10	66	30	14	22	32	1.93
313017--313076	20	3.0	20	95	0	102	31	16	18	33	1.93
316268--316309	20	2.1	20	86	0	57	35	9	16	38	1.81
317304--317452	50	3.0	50	100	0	298	30	6	14	49	1.67
326772--326800	7	4.3	7	91	8	51	86	0	0	13	0.58
326772--326800	13	2.1	14	93	6	51	86	0	0	13	0.58
340964--341004	18	2.2	19	86	4	57	56	0	0	43	0.99
342757--343021	55	4.9	55	84	7	312	29	24	14	30	1.95
343011--343115	53	2.0	53	88	7	160	24	26	15	33	1.95
344483--344559	12	6.1	12	80	18	77	5	6	0	88	0.64
344482--344547	29	2.3	29	89	7	100	3	7	0	89	0.58
344483--344547	1	65.0	1	81	0	76	3	6	0	90	0.53
356736--356779	15	3.1	14	84	12	54	63	2	2	31	1.19
357381--357484	44	2.3	45	83	4	122	22	25	22	29	1.99
357439--357561	39	3.2	39	86	0	174	21	26	21	30	1.98
358173--358197	2	12.5	2	100	0	50	48	0	0	52	1.00
358284--358345	25	2.5	25	89	0	88	48	4	4	41	1.46
360431--360465	16	2.2	16	100	0	70	37	17	20	25	1.94
360742--360776	13	2.8	12	87	12	52	54	2	0	42	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
362247--362302	29	2.0	29	82	3	69	57	16	3	23	1.55
368513--368593	21	3.8	22	77	7	69	23	38	24	13	1.91
370797--370882	41	2.1	41	100	0	172	30	4	26	38	1.77
371249--371276	14	2.0	14	100	0	56	14	57	7	21	1.61
373349--373523	89	2.0	85	91	3	260	44	7	21	27	1.79
373349--373526	86	2.1	85	89	6	270	43	7	20	28	1.78
377636--377709	31	2.4	31	81	4	96	40	10	20	28	1.86
378621--378681	31	2.0	31	96	0	113	34	14	26	24	1.94
378996--379049	20	2.7	20	94	0	99	27	29	16	25	1.97
379051--379102	21	2.5	20	76	11	61	23	19	17	40	1.91
379118--379177	20	3.0	20	80	9	77	43	23	15	18	1.87
379094--379177	40	2.1	40	84	8	109	42	21	15	20	1.88
379305--379352	22	2.2	22	88	0	69	22	43	12	20	1.86
381677--381795	42	2.8	42	81	6	123	21	37	20	21	1.94
381684--381772	21	4.2	21	77	8	74	22	37	20	20	1.95
383202--383239	14	2.8	14	96	4	69	34	0	21	44	1.52
383565--383646	39	2.1	39	93	0	137	19	15	18	46	1.84
384275--384342	20	3.8	20	70	23	69	16	19	23	41	1.90
384662--384697	18	2.0	18	94	0	63	16	2	25	55	1.55
387080--387113	12	2.8	12	90	0	50	17	2	26	52	1.58
387849--387973	20	6.4	20	75	10	107	27	13	28	31	1.94
387849--387977	19	6.6	20	74	10	115	26	13	27	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390126--390177	26	2.0	26	81	7	61	28	25	17	28	1.97
390727--390752	13	2.0	13	100	0	52	53	0	0	46	1.00
392782--392821	18	2.3	17	91	4	62	17	47	22	12	1.81
395189--395279	24	3.8	24	85	2	121	26	16	19	37	1.93
395189--395279	47	1.9	48	90	2	148	26	16	19	37	1.93
399701--399790	24	3.8	24	82	5	112	25	17	20	36	1.94
399701--399790	46	1.9	47	88	2	137	25	17	20	36	1.94
400574--400696	46	2.8	44	85	7	167	31	23	7	37	1.82
400808--400929	40	3.0	40	98	0	235	32	26	17	23	1.96
405246--405280	17	2.1	17	100	0	70	31	0	28	40	1.57
413295--413322	8	3.5	8	100	0	56	10	21	42	25	1.85
413418--413507	45	2.0	45	86	4	128	27	15	27	28	1.96
414354--414379	2	13.0	2	100	0	52	50	0	0	50	1.00
420183--420225	18	2.4	18	92	3	70	4	18	37	39	1.72
422123--422705	301	1.9	301	87	0	851	33	16	16	33	1.92
423491--423533	12	3.3	13	80	6	52	23	2	2	72	1.08
423494--423568	13	5.8	14	69	21	56	26	4	5	64	1.33
423494--423572	15	5.9	14	68	20	53	25	3	6	64	1.34
425313--425354	12	3.6	11	79	20	50	76	0	21	2	0.90
428248--428290	21	2.0	23	86	9	63	58	2	0	39	1.11
430749--430774	12	2.2	12	100	0	52	69	0	0	30	0.89
431071--431203	54	2.5	54	91	0	230	26	17	23	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430934--431524	191	3.1	189	90	1	889	26	16	23	33	1.96
431265--431394	54	2.4	54	92	0	206	25	19	24	30	1.98
433567--433693	2	64.0	2	96	1	238	49	0	0	50	1.00
435809--436498	55	12.6	55	91	0	1039	29	25	14	29	1.95
435692--436498	165	4.9	165	88	2	1042	29	25	14	29	1.95
437458--437542	44	1.9	44	80	7	100	15	29	16	38	1.89
447061--447108	22	2.2	22	100	0	96	45	4	16	33	1.67
449090--449122	2	16.5	2	100	0	66	48	0	0	51	1.00
450993--451074	18	4.6	18	78	0	92	19	43	19	17	1.88
450997--451073	36	2.1	36	85	4	102	19	42	19	18	1.89
453809--453833	2	12.5	2	100	0	50	48	0	0	52	1.00
459631--459674	18	2.5	18	88	3	63	6	18	36	38	1.77
461535--462125	301	2.0	300	87	0	858	33	16	16	34	1.91
462914--462999	26	3.4	26	73	13	99	25	3	4	66	1.27
466756--466803	3	15.0	3	79	12	51	70	0	27	2	0.98
466756--466791	10	3.7	10	88	3	56	69	0	27	2	1.02
470387--470472	26	3.4	26	73	13	99	25	3	4	66	1.27
475906--476046	70	2.0	70	87	2	203	25	14	24	35	1.93
477422--477460	14	2.8	13	84	7	51	82	0	17	0	0.68
482150--482188	19	2.1	19	100	0	78	48	20	5	25	1.70
482766--482908	72	2.0	72	83	0	178	34	25	20	20	1.96
484519--484568	24	2.1	23	81	3	55	18	44	22	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485537--485606	31	2.2	32	87	5	99	14	18	30	37	1.90
492899--493145	136	1.8	136	88	0	377	27	19	16	36	1.93
495822--495880	31	1.9	31	85	0	82	38	3	3	54	1.34
495984--496034	20	2.6	20	96	3	95	23	29	11	35	1.90
500241--500329	26	3.5	26	76	17	114	28	3	4	64	1.29
500216--500330	50	2.3	51	83	7	146	29	4	4	61	1.34
500248--500325	24	3.2	24	71	10	77	26	3	5	64	1.32
507392--507422	15	2.0	16	93	6	55	45	6	12	35	1.68
510159--510494	43	7.7	44	89	3	493	16	25	23	33	1.96
510146--510494	87	4.0	87	89	3	522	16	25	23	33	1.96

Tables:   1   2   3   4