genome.fa.s8243.2.7.7.80.10.50.1000.2.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   

This is table  2  of  49  ( 5786 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)
215713--215767	10	5.2	10	81	12	56	16	14	12	56	1.68
227368--227428	20	2.9	20	85	7	59	24	32	26	16	1.96
227390--227451	21	2.9	21	83	11	72	22	33	25	17	1.96
237482--237513	14	2.3	14	100	0	64	46	15	15	21	1.83
240080--240123	20	2.1	21	84	12	56	18	6	13	61	1.54
249615--249721	52	2.0	53	89	3	162	42	14	22	19	1.88
254212--254318	52	2.0	53	89	3	162	42	15	21	19	1.88
272205--272293	44	2.0	44	86	4	126	40	21	5	32	1.76
273705--273759	25	2.2	24	83	3	65	47	1	3	47	1.30
277571--277623	26	2.0	26	88	0	79	41	7	5	45	1.56
286273--286308	16	2.2	16	90	5	54	11	5	0	83	0.80
286459--286758	21	14.6	21	74	5	141	20	19	24	35	1.96
286501--286785	20	13.9	20	71	9	128	18	20	23	36	1.95
286480--286634	61	2.5	61	95	0	283	19	20	23	36	1.95
286480--286716	41	5.8	40	70	7	136	19	19	24	36	1.95
286459--286757	82	3.6	82	80	7	329	20	19	24	35	1.96
286458--286760	143	2.1	143	85	5	398	20	19	24	35	1.96
286541--286838	164	1.8	163	86	4	429	19	19	24	36	1.95
286749--286820	22	3.4	22	73	11	87	18	19	25	37	1.94
286770--286838	19	3.5	19	73	11	75	18	20	21	39	1.93
286626--286838	41	5.2	41	73	12	195	19	19	24	36	1.95
286933--287003	6	12.5	6	98	1	114	29	53	16	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
287621--287674	22	2.5	22	87	0	90	37	27	16	18	1.93
287705--287790	20	4.2	20	77	2	100	40	24	20	13	1.89
287727--287822	41	2.3	41	90	0	147	33	22	22	20	1.97
288011--288059	10	4.6	11	80	11	50	34	2	0	63	1.06
289969--290039	30	2.4	30	83	4	90	28	28	8	35	1.86
290612--290639	12	2.3	12	100	0	56	50	0	0	50	1.00
291968--292015	23	2.1	23	92	0	78	52	18	18	10	1.74
294185--294625	218	2.0	223	96	3	831	47	13	16	22	1.81
298290--298317	2	14.0	2	100	0	56	0	50	0	50	1.00
302293--302336	20	2.1	21	87	4	63	34	9	4	52	1.54
308113--308150	15	2.5	15	95	0	67	36	21	18	23	1.95
308783--309042	2	130.0	2	67	20	118	47	3	4	45	1.38
308793--308881	17	4.9	18	78	21	89	49	3	1	46	1.26
309555--309616	7	9.3	7	82	3	67	45	32	0	22	1.53
309555--309597	6	6.7	6	87	12	59	48	32	0	18	1.48
309555--309621	14	5.0	14	85	5	86	41	35	0	22	1.54
309791--309848	7	8.3	7	74	0	53	51	29	0	18	1.47
309797--309848	14	3.7	14	86	0	68	51	28	0	19	1.47
310213--310243	15	2.1	15	93	0	53	48	9	0	41	1.36
310258--310361	48	2.1	49	82	3	120	50	10	6	31	1.63
310350--310389	14	2.9	14	88	0	53	52	22	0	25	1.47
310344--310396	14	3.8	14	82	0	52	52	26	0	20	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309692--310726	553	1.9	554	92	1	1772	43	11	9	35	1.73
310693--310750	22	2.4	25	86	11	86	43	1	0	55	1.10
310866--310979	7	16.3	7	96	0	210	45	40	0	14	1.44
311145--311191	14	3.7	14	71	26	50	51	4	0	44	1.21
311143--311192	23	2.1	24	96	3	93	48	4	0	48	1.20
311465--311495	16	1.9	16	93	0	53	41	12	22	22	1.88
312487--312554	22	3.0	22	76	4	73	32	25	23	19	1.97
313005--313045	21	2.0	21	86	9	59	36	14	0	48	1.44
314115--314192	20	3.8	20	75	18	70	24	25	19	30	1.98
315014--315054	2	20.5	2	100	0	82	48	0	0	51	1.00
316653--316982	166	2.0	166	96	0	615	29	14	21	34	1.93
319258--319307	21	2.5	21	81	15	61	42	4	16	38	1.66
319565--319737	32	5.5	31	73	16	101	32	16	16	35	1.91
327745--327851	53	2.0	53	100	0	214	24	22	11	42	1.86
330402--330458	22	2.6	22	76	15	55	56	0	5	38	1.22
330622--330694	23	2.9	26	72	14	71	56	0	4	39	1.19
330672--330717	20	2.3	18	80	20	56	58	0	2	39	1.10
330675--330715	20	2.0	20	90	9	64	53	0	2	43	1.13
335408--335475	34	2.0	34	97	0	127	19	19	17	44	1.88
343419--343866	134	3.3	133	83	4	494	23	18	29	27	1.98
343919--344042	36	3.6	34	70	15	101	39	13	16	30	1.87
344303--344448	68	2.1	68	82	10	161	38	13	14	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344561--344632	36	2.0	36	83	5	92	40	8	18	33	1.80
347285--347374	19	4.7	18	71	20	67	1	13	8	76	1.06
347272--347383	14	7.6	15	73	19	69	0	16	8	73	1.14
347290--347341	25	2.1	25	82	13	63	0	13	7	78	0.94
349368--349428	31	1.9	32	90	3	97	59	9	13	18	1.61
352746--352874	31	4.1	31	76	5	125	32	19	18	29	1.96
354249--354305	28	2.0	28	96	0	105	57	14	1	26	1.46
356447--356773	36	9.2	36	78	11	313	41	6	4	46	1.51
356585--356642	11	5.0	11	73	19	55	43	8	1	46	1.44
356645--356688	2	22.5	2	95	4	81	47	0	0	52	1.00
356682--356731	26	1.9	26	88	8	75	44	6	4	46	1.47
356670--356773	37	2.8	37	88	1	154	40	4	5	49	1.48
370916--370943	14	2.0	14	100	0	56	14	21	14	50	1.78
374200--374677	237	2.0	239	99	0	942	36	16	20	26	1.93
375771--375812	14	3.0	14	86	13	68	14	23	11	50	1.76
379985--380084	50	2.0	50	88	0	146	28	17	29	26	1.97
381041--381304	130	2.0	131	97	2	503	28	20	21	29	1.98
384032--384089	3	20.3	3	86	10	86	31	0	0	68	0.89
384040--384083	11	3.9	11	96	3	79	34	0	0	65	0.93
384036--384089	14	3.8	14	88	9	74	31	0	0	68	0.90
384739--384797	7	8.1	7	78	14	66	30	0	0	69	0.89
384732--384770	4	10.5	4	89	10	57	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384732--384794	29	2.2	29	86	11	85	30	0	0	69	0.88
384731--384802	11	7.7	10	72	24	68	30	1	0	68	0.99
388514--388929	110	3.8	110	90	1	642	33	24	18	23	1.97
388514--388929	221	1.9	216	90	3	654	33	24	18	23	1.97
388893--389750	241	3.6	241	91	0	1371	31	24	19	24	1.98
390311--390392	33	2.5	34	86	4	114	36	24	13	25	1.92
390928--390973	4	11.2	4	78	21	51	28	0	0	71	0.86
390927--390976	7	6.9	7	82	13	57	30	0	0	70	0.88
392928--393325	199	2.0	199	100	0	796	30	12	27	30	1.92
395057--395101	22	2.0	22	86	0	63	28	22	17	31	1.97
396422--396521	18	5.6	18	93	0	164	26	32	23	19	1.97
398661--398712	16	3.1	16	73	15	52	44	5	5	44	1.52
398698--398787	2	48.0	2	70	24	54	45	2	2	50	1.26
398708--398783	28	2.8	28	78	9	79	44	1	2	51	1.23
398687--398787	30	3.2	30	77	20	100	44	1	2	50	1.28
402053--402105	21	2.5	21	100	0	106	18	32	11	37	1.87
402592--402860	135	2.0	135	88	2	398	29	9	7	53	1.60
405679--405822	43	3.4	43	78	0	146	34	20	22	22	1.96
405869--405982	41	2.8	41	79	10	117	29	21	20	28	1.98
407331--407376	16	2.9	16	100	0	92	32	4	17	45	1.68
408696--408759	26	2.5	26	86	0	92	32	3	21	42	1.69
410507--410560	25	2.2	23	75	15	54	42	1	1	53	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410692--410755	3	21.3	3	100	0	128	32	34	0	32	1.58
424989--425079	46	2.0	46	86	0	128	43	20	6	28	1.77
429434--429779	190	1.8	190	85	3	491	46	9	5	38	1.60
432944--433086	55	2.6	55	82	10	193	27	25	12	34	1.92
434352--434722	191	1.9	192	87	3	545	44	10	5	39	1.62
443136--443169	18	1.9	18	88	5	52	23	26	0	50	1.50
455683--455753	22	3.3	21	69	15	56	28	16	18	36	1.93
455655--455734	20	3.9	20	70	12	54	28	18	20	32	1.96
455674--455972	42	6.9	42	75	13	167	29	18	21	31	1.97
455815--455928	22	5.4	22	69	19	98	26	20	23	29	1.99

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49