genome.fa.s7926.2.7.7.80.10.50.1000.2.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  2  of  42  ( 5024 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)
251245--251289	22	2.0	22	83	8	56	60	0	6	33	1.23
252690--252749	3	20.0	3	80	13	70	63	1	0	35	1.05
253964--254009	21	2.2	21	88	0	65	30	28	26	15	1.96
254036--254080	22	2.0	22	86	4	63	31	33	26	8	1.87
255297--255327	16	1.9	16	100	0	62	6	19	38	35	1.77
255410--255445	18	2.0	18	100	0	72	11	22	33	33	1.89
255552--255612	23	2.7	23	78	0	77	21	22	27	27	1.99
256323--256950	113	5.6	113	88	3	979	26	20	15	37	1.93
256323--256950	329	1.9	332	89	2	983	26	20	15	37	1.93
256896--256940	23	1.9	23	82	13	56	15	24	6	53	1.66
257698--257771	22	3.5	21	85	10	98	39	13	13	33	1.84
259007--259181	76	2.3	76	85	1	217	29	21	18	30	1.97
260305--260528	114	2.0	114	93	0	385	30	20	16	32	1.95
262825--262854	14	2.1	14	100	0	60	0	20	0	80	0.72
262805--262862	20	2.9	19	82	7	53	0	17	3	79	0.87
263154--263178	2	12.5	2	100	0	50	52	0	0	48	1.00
264782--264837	27	2.1	27	89	0	85	60	7	12	19	1.55
264811--264838	12	2.3	12	100	0	56	53	7	14	25	1.66
264897--264938	7	6.0	7	78	10	50	54	14	16	14	1.71
268645--268704	3	20.0	3	80	13	70	63	1	0	35	1.05
273645--273679	16	2.2	16	100	0	70	45	25	14	14	1.82
280143--280196	22	2.4	23	78	9	58	66	1	7	24	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
280599--280654	2	28.0	2	100	0	112	50	0	0	50	1.00
284270--284294	3	8.3	3	100	0	50	32	0	0	68	0.90
285802--285830	14	2.1	14	100	0	58	44	6	0	48	1.29
286353--286378	2	13.0	2	100	0	52	0	50	0	50	1.00
298539--298570	2	16.0	2	100	0	64	50	0	0	50	1.00
300502--300544	21	2.0	21	81	0	50	51	2	2	44	1.27
306128--306154	8	3.4	8	100	0	54	70	0	0	29	0.88
306931--307001	31	2.3	31	87	4	99	46	9	18	25	1.79
307594--307701	41	2.5	41	78	10	119	61	3	12	23	1.47
307683--307733	25	2.0	25	96	0	93	62	0	7	29	1.23
307691--307731	14	3.1	14	73	20	52	60	0	7	31	1.24
317824--318668	212	4.0	212	91	0	1354	34	21	15	28	1.94
319469--319500	16	2.0	16	93	0	55	56	28	0	15	1.40
326251--326280	2	15.0	2	100	0	60	50	0	0	50	1.00
326415--326459	21	2.1	21	87	0	63	17	6	28	46	1.73
332063--332109	22	2.1	23	88	4	69	44	0	0	55	0.99
332864--332973	54	2.0	54	98	0	211	29	14	11	44	1.81
334793--334824	2	16.5	2	93	6	57	53	0	46	0	1.00
351350--351411	28	2.2	28	91	0	97	24	22	6	46	1.75
360590--360637	18	2.6	19	80	3	62	18	8	4	68	1.31
365396--365455	29	2.0	30	81	9	70	55	0	1	43	1.10
365995--366114	61	2.0	61	93	0	204	47	10	9	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371379--371422	21	2.2	20	84	8	54	68	15	9	6	1.38
376162--376197	2	18.0	2	100	0	72	50	0	0	50	1.00
376693--376801	35	3.2	34	81	12	100	33	0	3	62	1.13
376693--376772	33	2.5	32	84	10	92	31	0	5	63	1.15
378505--378552	21	2.3	21	85	0	60	25	39	12	22	1.89
378556--378649	21	4.5	21	92	5	129	18	35	26	20	1.95
379171--379234	34	1.9	34	90	3	103	59	4	1	34	1.28
379613--379956	124	2.8	125	95	3	614	31	21	26	20	1.98
397367--397410	18	2.4	18	88	0	61	45	4	18	31	1.69
398974--399008	4	8.8	4	87	0	52	22	2	22	51	1.61
402384--402424	21	2.0	21	90	0	64	41	24	0	34	1.55
403963--404025	33	1.9	33	86	0	90	36	11	12	39	1.79
405806--405830	9	2.8	9	100	0	50	80	0	0	20	0.72
406861--406962	34	2.9	36	89	7	172	27	14	13	44	1.83
407510--408341	105	8.0	105	92	1	1314	22	17	26	33	1.96
408984--409151	68	2.5	67	84	3	214	36	9	22	30	1.86
409059--409305	102	2.4	101	83	3	298	40	12	20	27	1.88
409218--409361	36	4.0	36	89	0	225	40	13	19	26	1.88
409223--409403	72	2.5	72	83	4	215	38	15	19	25	1.92
410291--410345	22	2.5	22	100	0	110	23	12	27	36	1.91
410996--411079	8	11.3	7	75	20	64	0	14	5	79	0.90
410995--411076	9	9.6	9	72	13	57	0	13	6	80	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410996--411073	17	4.6	17	77	17	74	0	14	6	79	0.92
412187--412225	8	5.0	8	84	6	53	58	12	17	10	1.61
412187--412225	15	2.5	15	87	4	51	58	12	17	10	1.61
413693--413759	16	3.8	16	72	24	62	26	37	8	26	1.86
413691--413800	39	2.8	39	93	1	177	23	36	10	30	1.88
415075--415130	24	2.3	25	75	6	62	73	0	5	21	1.03
415277--415404	55	2.3	56	81	6	145	58	0	3	36	1.22
415414--415456	18	2.5	17	85	7	61	67	2	4	25	1.22
415846--415947	34	2.9	35	89	5	161	29	13	12	44	1.81
420424--420471	2	24.5	2	78	4	53	47	0	0	52	1.00
424178--424268	29	3.1	29	71	12	78	34	15	5	45	1.69
424160--424352	60	3.3	58	86	4	260	34	20	4	40	1.73
424160--424400	60	4.1	59	82	5	254	33	21	4	39	1.75
430346--430420	36	2.1	36	82	5	89	38	22	16	22	1.92
434099--434133	18	1.9	18	88	0	52	25	31	25	17	1.97
434215--434318	31	3.4	31	77	2	111	46	10	2	40	1.53
436984--437014	2	15.5	2	100	0	62	0	48	0	51	1.00
442509--442684	88	2.0	88	100	0	352	29	19	9	42	1.82
447066--447111	20	2.3	20	92	0	74	36	13	21	28	1.91
454235--454285	25	2.0	25	81	7	59	64	0	0	35	0.94
454247--454285	12	3.2	12	85	7	51	61	0	0	38	0.96
454235--454274	12	3.1	13	85	10	55	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455867--456586	356	2.0	351	96	2	1336	32	15	16	34	1.91
465864--465893	5	6.0	5	100	0	60	0	20	60	20	1.37
482533--482578	15	3.1	15	78	12	58	6	6	34	52	1.53
482542--482576	18	1.9	18	94	0	61	8	8	34	48	1.64
485082--485150	27	2.6	27	92	0	120	0	20	34	44	1.52
485079--485155	27	3.0	24	74	20	73	1	18	35	45	1.58
485635--485674	2	20.0	2	100	0	80	50	0	0	50	1.00
485946--486001	2	28.5	2	96	3	105	50	0	0	50	1.00
486250--486274	8	3.1	8	100	0	50	64	12	12	12	1.51
489018--489081	20	3.3	20	71	6	69	40	17	21	20	1.91
489021--489095	38	1.9	39	94	2	134	42	16	22	18	1.88
489096--489189	20	4.7	20	80	2	89	34	24	18	23	1.96
489093--489170	41	1.9	41	86	0	111	39	21	16	21	1.92
489744--489961	19	12.1	19	75	16	178	13	21	21	44	1.86
489744--489868	55	2.2	57	88	2	182	13	19	20	46	1.83
489884--489961	18	4.4	18	67	25	58	12	24	19	43	1.86
489802--489961	33	4.5	33	81	9	140	12	21	23	43	1.86
491985--492051	21	3.2	21	66	6	55	23	35	20	19	1.95
491929--492051	42	2.9	42	80	4	115	23	36	17	22	1.94
494278--494314	14	2.6	14	86	0	56	48	21	0	29	1.50
494860--494896	14	2.6	14	86	0	56	48	21	0	29	1.50
495432--495468	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493908--498621	579	8.1	588	94	4	8448	36	19	12	31	1.89
497050--497102	18	2.8	19	91	5	90	15	24	26	33	1.95
498342--498378	14	2.6	14	86	0	56	48	21	0	29	1.50
500208--500277	18	3.7	19	81	9	90	38	24	22	14	1.91
500280--500354	32	2.4	31	82	12	100	12	20	25	42	1.86
500855--500899	18	2.5	18	85	0	63	15	15	42	26	1.87
502086--502136	19	2.7	19	78	3	59	45	23	17	13	1.84
502358--502401	22	2.0	22	95	0	79	18	15	45	20	1.85
502586--502679	20	4.7	20	80	2	89	23	18	24	34	1.96
502566--502680	20	5.7	20	78	5	88	23	17	23	35	1.95

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