genome.fa.s8087.2.7.7.80.10.50.1000.2.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  2  of  37  ( 4336 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)
243197--243232	2	18.0	2	100	0	72	50	0	0	50	1.00
244685--244767	29	2.8	29	92	1	139	39	13	15	31	1.86
249424--249506	29	2.8	29	92	1	139	39	13	15	31	1.86
251043--251117	31	2.5	31	86	6	109	41	17	13	28	1.87
254559--255023	111	4.1	112	90	1	680	46	12	14	26	1.81
254892--255344	182	2.5	182	87	1	656	44	11	15	28	1.81
255957--256013	23	2.4	23	79	2	60	42	12	5	40	1.65
262592--262704	56	2.0	56	87	3	165	28	21	21	29	1.98
271462--271547	29	3.0	29	94	0	145	13	30	31	24	1.94
271565--271589	12	2.1	12	100	0	50	40	8	36	16	1.77
271618--271702	29	2.9	29	86	6	118	14	34	29	22	1.93
271720--271772	23	2.3	24	87	9	83	11	35	24	28	1.90
271767--271804	20	1.9	20	94	0	67	10	26	36	26	1.89
271843--271900	29	2.0	29	89	0	89	22	27	36	13	1.92
287493--287541	23	2.1	23	84	0	62	30	26	16	26	1.97
287569--287609	21	1.9	22	85	5	57	51	12	2	34	1.52
295847--295879	2	16.5	2	100	0	66	48	0	0	51	1.00
298845--298898	28	1.9	28	84	0	72	29	12	22	35	1.91
300741--300797	17	3.4	16	73	20	53	49	1	0	49	1.11
305230--305558	130	2.6	125	85	5	432	41	21	8	28	1.82
305403--305459	7	8.3	7	80	3	62	40	38	1	19	1.62
307543--307633	30	2.9	30	90	4	137	28	14	17	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
307721--307788	35	1.9	36	84	3	93	25	8	16	50	1.73
307998--308034	17	2.2	17	100	0	74	24	16	32	27	1.96
308011--308075	29	2.2	29	94	0	121	30	20	24	24	1.98
308048--308091	11	3.9	11	79	5	52	29	22	22	25	1.99
308019--308088	29	2.7	25	85	12	81	28	22	22	25	1.99
308139--308199	31	2.0	31	90	0	95	21	14	21	42	1.88
315457--315482	13	2.0	13	100	0	52	69	0	0	30	0.89
322381--322453	3	25.0	3	81	18	84	0	28	0	71	0.87
322381--322453	15	4.9	16	82	14	95	0	28	0	71	0.87
322382--322453	36	1.9	39	91	8	123	0	29	0	70	0.87
322443--322520	33	2.4	33	91	4	122	12	42	2	42	1.57
325129--325202	32	2.4	31	86	8	105	40	0	43	16	1.48
325191--325256	3	21.3	3	90	6	105	65	0	33	1	1.02
328362--328418	24	2.3	25	80	17	66	71	7	5	15	1.25
331271--331568	147	2.0	147	99	0	587	25	21	15	36	1.93
337378--337402	13	1.9	13	100	0	50	20	24	40	16	1.91
340071--340105	2	17.5	2	100	0	70	51	0	0	48	1.00
342108--342150	18	2.4	18	84	0	59	32	23	18	25	1.97
343796--343828	14	2.4	14	94	0	57	33	6	30	30	1.82
344759--344800	3	14.3	3	95	5	77	33	0	0	66	0.92
348767--348830	27	2.4	27	91	0	101	25	6	40	28	1.79
349013--349076	27	2.4	27	91	0	101	26	42	6	25	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350747--350805	29	2.0	29	96	0	109	25	13	13	47	1.79
352085--352122	14	2.6	14	84	15	51	28	2	0	68	1.03
359471--359567	48	2.0	48	97	0	185	35	2	23	39	1.67
359629--359677	22	2.3	21	80	13	55	34	2	6	57	1.35
359828--359860	14	2.4	14	90	10	50	6	9	9	75	1.18
366786--366823	14	2.6	14	84	15	51	28	2	0	68	1.03
372989--373049	25	2.4	25	97	0	113	18	18	24	39	1.92
376457--376498	16	2.6	16	88	3	57	64	0	0	35	0.94
379142--379181	15	2.5	17	80	12	57	15	17	2	65	1.39
382100--382140	21	1.9	22	90	5	66	78	0	0	21	0.76
382098--382140	14	3.1	14	81	15	54	79	0	0	20	0.74
387612--387655	18	2.4	19	81	7	56	68	2	9	20	1.28
390611--390641	7	4.4	7	100	0	62	25	29	29	16	1.96
390638--390695	5	10.8	5	77	14	53	8	22	50	18	1.74
390631--390697	22	3.0	22	95	0	125	11	22	47	17	1.80
390624--390679	27	2.0	28	89	6	87	14	23	44	17	1.85
390694--390791	19	5.1	19	80	13	101	28	27	26	17	1.98
390692--390790	9	10.3	9	80	10	90	28	27	28	16	1.97
390693--390790	29	3.4	28	85	5	124	28	27	27	16	1.97
397956--397998	22	2.0	22	100	0	86	9	23	48	18	1.76
397995--398064	9	7.3	9	80	12	68	28	27	28	15	1.96
397995--398044	19	2.7	18	90	9	82	26	30	30	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398027--398065	21	1.9	21	89	5	62	33	23	25	17	1.96
401975--402083	21	5.2	20	72	15	78	24	22	20	33	1.97
401980--402077	42	2.3	42	94	0	178	24	20	20	34	1.96
401999--402070	21	3.4	21	76	14	85	23	19	19	37	1.94
402822--402855	12	3.1	11	91	8	52	0	17	52	29	1.45
402960--403125	42	3.7	42	78	17	174	37	21	18	22	1.94
403121--403173	21	2.5	21	90	0	79	18	20	30	30	1.97
404582--404649	16	4.3	16	75	16	54	50	2	2	44	1.32
404593--404648	16	3.7	15	76	13	62	46	3	3	46	1.37
404597--404659	29	2.2	29	97	0	117	49	6	3	41	1.44
413267--413328	2	31.0	2	100	0	124	50	0	0	50	1.00
414518--414819	107	2.8	109	89	1	437	27	29	21	21	1.98
415246--415274	15	1.9	15	100	0	58	17	6	27	48	1.72
418353--418411	24	2.5	24	85	0	82	20	11	16	50	1.76
421019--421169	43	3.5	43	84	1	203	52	7	12	27	1.65
421020--421184	87	1.9	87	87	0	240	53	6	13	25	1.64
431296--431328	14	2.3	15	94	5	59	75	0	0	24	0.80
431859--431979	2	69.5	2	69	26	53	42	0	0	57	0.99
431857--431975	38	3.3	38	82	15	164	42	0	0	57	0.99
432290--432321	16	2.0	16	100	0	64	31	12	37	18	1.88
434777--434912	35	3.9	35	87	3	193	21	24	17	36	1.94
434780--434923	71	2.0	71	90	2	227	20	24	16	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437040--437190	64	2.3	63	85	6	187	34	19	17	28	1.95
437837--437944	31	3.5	31	79	3	103	25	18	21	35	1.96
437859--437964	31	3.5	30	79	6	88	25	18	22	33	1.97
441192--441342	64	2.3	63	85	6	187	34	19	17	28	1.95
442008--442082	31	2.5	31	84	2	89	29	17	21	32	1.96
442041--442116	30	2.5	30	82	2	89	19	19	26	34	1.96
445639--445679	20	2.0	20	100	0	82	24	31	14	29	1.95
447542--447576	18	1.9	18	88	0	52	42	8	14	34	1.76
450370--450677	36	8.6	36	76	16	243	44	2	6	45	1.44
450523--450667	32	4.4	31	72	20	98	44	2	5	48	1.37
451797--451830	5	6.8	5	96	0	59	2	0	14	82	0.79
451943--451987	21	2.1	21	84	8	56	8	8	6	75	1.19
452108--452169	13	4.9	12	73	15	54	8	0	11	80	0.90
452112--452171	15	4.0	15	80	6	68	10	0	10	80	0.92
452151--452236	36	2.5	33	76	9	93	15	6	4	73	1.21
455936--455962	14	1.9	14	100	0	54	55	0	37	7	1.28
456141--456175	17	1.9	19	88	11	56	31	8	34	25	1.86
472266--472366	52	2.0	51	84	5	132	42	38	4	13	1.66
479800--479847	25	1.9	25	100	0	96	41	4	29	25	1.74
482680--482720	20	2.0	20	85	0	55	51	0	14	34	1.43
484388--484467	3	26.7	3	85	9	110	0	32	1	66	1.00
492382--492440	25	2.4	25	82	5	75	33	20	11	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510521--510579	31	1.9	31	92	0	100	40	6	10	42	1.65
510602--510641	21	1.9	21	100	0	80	52	12	0	35	1.39
510659--510733	22	3.2	23	71	17	73	54	10	0	34	1.35
510688--511707	54	19.2	54	73	17	519	52	11	0	35	1.41
510735--510780	21	2.2	21	96	0	83	47	8	0	43	1.34
510756--510838	32	2.6	33	90	5	134	51	8	0	39	1.32
510781--510833	14	3.5	14	72	18	52	56	5	0	37	1.23
510607--511791	165	7.4	164	70	17	685	52	12	0	35	1.41
510867--511056	32	6.6	32	74	22	206	52	11	0	36	1.38
510933--510975	22	2.0	22	100	0	86	51	13	0	34	1.42

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