genome.fa.s8488.2.7.7.80.10.50.1000.46.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   50   51   52   53   54   

This is table  46  of  54  ( 6450 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)
10924325--10924455	65	2.0	65	100	0	262	48	9	22	19	1.77
10925965--10926037	30	2.4	30	81	4	83	39	6	23	30	1.81
10928753--10928864	6	19.3	6	69	17	60	6	13	0	79	0.96
10928745--10928855	14	7.4	14	75	17	57	6	13	0	79	0.97
10928753--10928855	32	3.2	32	80	13	104	5	13	0	79	0.96
10928765--10928856	16	5.8	15	76	13	62	6	11	1	80	0.95
10940579--10940654	22	3.5	22	82	7	75	52	19	10	17	1.73
10940643--10940687	23	2.0	23	86	8	65	40	15	13	31	1.86
10941536--10941605	30	2.4	29	81	9	88	32	25	2	38	1.71
10941767--10941882	60	1.9	61	84	8	157	43	1	21	32	1.63
10944083--10944129	20	2.5	18	77	19	51	34	0	10	55	1.35
10946697--10946742	22	2.2	20	84	7	56	41	2	8	47	1.46
10952140--10952185	19	2.4	19	85	0	65	19	17	6	56	1.62
10959420--10959729	130	2.4	132	78	4	317	38	17	15	29	1.90
10959885--10959919	17	2.0	18	88	5	54	71	0	20	8	1.11
10960075--10960394	159	2.0	161	98	1	626	28	18	23	29	1.98
10960502--10960623	59	2.1	59	100	0	244	45	1	30	22	1.62
10961349--10961432	29	2.9	29	90	0	132	16	26	5	51	1.67
10963315--10963409	20	4.8	20	69	14	61	30	15	11	42	1.83
10963315--10963449	60	2.2	60	77	12	150	31	16	10	41	1.82
10966184--10966217	12	2.9	12	91	4	52	8	32	0	58	1.29
10967005--10967074	21	3.3	21	76	7	70	34	15	15	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10967005--10967112	42	2.6	42	78	7	114	35	17	15	31	1.92
10967017--10967084	21	3.2	22	79	8	79	32	13	19	35	1.90
10992824--10992877	26	2.0	27	85	10	74	61	1	0	37	1.07
10992819--10992879	27	2.3	27	82	8	79	59	1	0	39	1.08
10994126--10994155	2	15.0	2	100	0	60	50	0	0	50	1.00
10995284--10995327	21	2.0	22	83	12	56	40	2	0	56	1.11
11004493--11004530	20	1.9	20	88	0	58	39	5	10	44	1.61
11007756--11007881	63	2.0	63	88	0	189	38	19	20	21	1.94
11015249--11015287	20	1.9	21	84	5	53	53	5	28	12	1.60
11016542--11016589	25	1.9	25	83	8	62	14	4	20	60	1.51
11021995--11022066	21	3.4	21	94	0	126	40	4	25	30	1.74
11023845--11024030	7	27.0	7	67	21	92	40	1	4	54	1.27
11023849--11024030	11	16.4	11	70	20	103	40	1	4	53	1.28
11023848--11024025	81	2.2	81	78	15	190	40	1	4	53	1.28
11023988--11024055	30	2.3	29	80	16	77	42	4	0	52	1.21
11024917--11024956	21	2.0	21	85	9	57	27	12	30	30	1.93
11031395--11031474	34	2.4	33	84	10	101	60	0	3	36	1.15
11031521--11031557	19	1.9	19	100	0	74	64	2	0	32	1.07
11031521--11031558	10	4.0	10	83	10	53	65	2	0	31	1.06
11033787--11033883	32	3.0	32	91	5	169	27	14	28	28	1.95
11046906--11046969	3	20.7	3	76	12	58	34	3	0	62	1.11
11046909--11046970	16	3.7	17	80	16	76	33	4	0	61	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11046903--11046954	22	2.4	22	83	0	68	34	3	0	61	1.14
11046915--11046969	22	2.5	22	85	5	67	36	3	0	60	1.15
11049752--11049840	45	1.9	48	86	6	130	35	13	22	28	1.92
11051952--11052044	29	3.2	29	86	4	107	32	6	20	40	1.78
11052981--11053188	42	5.0	41	92	4	335	18	24	25	31	1.98
11052981--11053188	84	2.5	84	96	1	382	18	24	25	31	1.98
11058330--11058427	49	2.0	49	100	0	196	32	14	18	34	1.91
11059202--11059256	13	4.3	13	88	2	76	20	45	18	16	1.86
11060290--11060619	42	7.8	41	89	6	468	18	25	24	31	1.98
11060290--11060619	84	3.9	84	94	3	542	18	25	24	31	1.98
11064111--11064172	23	2.8	22	79	13	81	77	0	20	1	0.85
11064111--11064168	12	4.8	12	81	10	66	77	0	20	1	0.86
11065662--11065803	41	3.5	40	76	13	105	30	14	24	30	1.94
11065751--11065840	38	2.3	38	81	7	92	34	14	26	24	1.94
11066550--11066786	119	2.0	119	91	0	384	35	13	17	33	1.89
11066760--11066838	20	4.0	20	78	6	88	25	17	21	35	1.95
11066750--11066898	60	2.5	60	84	2	183	28	23	17	30	1.97
11066768--11066898	20	6.6	20	73	0	73	29	22	16	31	1.96
11066810--11066904	40	2.4	40	81	0	118	29	23	17	29	1.97
11067050--11067106	3	19.0	3	87	7	80	33	3	0	63	1.12
11067827--11067876	17	2.8	17	80	20	57	34	20	30	16	1.94
11067933--11067979	18	2.6	18	93	0	85	36	0	42	21	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11070453--11070481	5	5.8	5	100	0	58	41	0	17	41	1.49
11071858--11071915	16	3.6	16	88	0	80	27	15	17	39	1.90
11071858--11071919	32	1.9	32	90	0	97	29	17	16	37	1.92
11079379--11079458	21	3.7	21	74	9	79	28	25	23	22	1.99
11079379--11079473	45	2.1	44	88	5	138	27	25	23	24	2.00
11079401--11079482	23	3.6	23	74	11	80	26	28	20	24	1.99
11081440--11081497	27	2.1	27	83	0	71	24	3	13	58	1.51
11083978--11084084	53	2.0	53	98	0	205	40	21	14	24	1.90
11084571--11084628	29	2.0	29	96	0	107	46	10	6	36	1.65
11085491--11085809	158	2.0	160	98	1	615	32	19	6	42	1.76
11086547--11086638	46	2.0	46	97	0	175	28	7	21	42	1.80
11088394--11088473	21	3.7	21	77	12	90	23	8	22	45	1.80
11088390--11088476	44	2.0	44	90	0	138	25	8	22	43	1.80
11089067--11089167	49	2.1	49	100	0	202	37	10	15	35	1.83
11094348--11094457	53	2.1	53	92	0	184	39	18	17	25	1.92
11096261--11096291	3	10.0	3	93	6	53	67	0	0	32	0.91
11097507--11097539	17	1.9	17	88	11	50	33	0	0	66	0.92
11107718--11107912	51	3.8	51	83	2	248	25	11	15	47	1.79
11107720--11107912	102	1.9	103	89	3	300	25	11	15	47	1.79
11109914--11109964	24	2.1	25	88	3	77	52	11	15	19	1.73
11114003--11114117	39	2.9	38	82	0	122	20	26	20	33	1.96
11118802--11118882	20	4.1	20	82	6	110	18	35	29	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11118804--11118883	40	2.0	40	90	4	126	18	33	30	17	1.94
11122121--11122259	19	7.7	19	70	17	100	20	33	28	17	1.95
11122114--11122251	67	2.0	70	95	4	255	20	32	29	17	1.95
11122591--11122660	34	2.1	32	86	5	95	32	14	31	21	1.93
11125628--11125669	21	2.0	21	100	0	84	28	38	19	14	1.90
11129339--11129366	14	2.0	14	100	0	56	21	14	7	57	1.61
11129363--11129425	15	4.3	15	83	4	83	38	7	19	34	1.81
11129363--11129425	30	2.1	30	97	2	119	38	7	19	34	1.81
11129408--11129477	20	3.5	20	88	0	113	41	8	12	37	1.74
11129644--11129708	28	2.3	27	84	10	85	52	1	1	44	1.19
11129643--11129747	29	3.5	30	78	19	105	53	1	0	43	1.18
11129674--11129733	24	2.7	23	82	7	61	56	1	0	41	1.09
11129761--11129804	22	2.0	23	86	4	63	54	0	0	45	0.99
11129765--11129821	21	2.6	22	81	10	64	52	0	0	47	1.00
11129701--11129821	54	2.3	51	77	19	133	50	0	0	47	1.12
11130010--11130129	42	2.9	42	97	0	222	45	19	20	15	1.86
11132356--11132405	25	2.0	26	88	4	75	62	0	4	34	1.14
11132634--11132678	21	2.1	21	87	0	63	40	11	2	46	1.52
11139646--11139949	82	3.7	82	77	9	248	27	16	22	33	1.95
11140364--11140408	22	2.0	22	91	0	72	40	8	13	37	1.76
11140373--11140417	22	2.1	22	83	4	56	46	11	8	33	1.70
11141702--11141812	41	2.7	41	84	0	141	27	19	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11150212--11150396	44	4.2	44	85	2	212	32	24	11	30	1.91
11150212--11150396	87	2.1	87	82	4	212	32	24	11	30	1.91
11150383--11150519	70	2.0	70	92	0	229	40	21	13	24	1.89
11150456--11150595	43	3.3	42	80	2	154	35	22	17	25	1.95
11151593--11151620	12	2.3	12	100	0	56	46	17	0	35	1.49
11151841--11151885	23	2.0	22	91	8	74	31	20	24	24	1.98
11155779--11155835	24	2.4	22	81	18	62	21	3	5	70	1.22
11158471--11158626	55	2.8	55	89	0	231	33	19	19	26	1.96
11178412--11178444	17	1.9	17	93	0	57	36	6	12	45	1.66
11185072--11185129	28	2.1	28	83	6	73	44	0	3	51	1.18

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   50   51   52   53   54