genome.fa.s9624.2.7.7.80.10.50.1000.34.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  34  of  38  ( 4514 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)
6893275--6893333	23	2.6	22	86	7	75	23	27	13	35	1.92
6895984--6896145	74	2.2	75	85	1	218	29	27	20	22	1.98
6895984--6896167	74	2.5	75	82	3	194	29	27	19	23	1.98
6904135--6904188	25	2.2	25	93	0	90	48	18	3	29	1.65
6913545--6913577	16	2.1	16	88	5	50	36	15	0	48	1.45
6914712--6914740	2	14.5	2	100	0	58	51	0	0	48	1.00
6919769--6919829	24	2.5	25	84	7	90	40	4	0	54	1.22
6929937--6930039	52	2.0	52	98	0	197	41	13	23	21	1.88
6934542--6934644	52	2.0	52	98	0	197	41	13	23	21	1.88
6935437--6935525	43	2.1	43	91	0	142	32	29	20	17	1.96
6950087--6950128	22	2.0	22	85	4	59	57	0	21	21	1.41
6960108--6960257	50	3.0	50	94	1	246	34	24	24	18	1.96
6960347--6960388	17	2.3	19	80	8	52	33	7	14	45	1.72
6965250--6965295	2	23.0	2	100	0	92	50	0	0	50	1.00
6979701--6979741	14	2.9	14	86	10	57	80	0	17	2	0.82
6983831--6983903	24	3.0	23	70	21	58	79	1	13	5	0.97
6987996--6988064	14	4.9	13	74	13	57	79	1	11	7	0.98
6987996--6988069	21	3.5	22	69	12	57	78	1	13	6	1.01
6995838--6995878	12	3.3	12	83	16	57	24	9	0	65	1.22
6996097--6996150	11	4.7	11	79	20	58	79	1	14	3	0.95
6996089--6996158	37	2.0	35	86	10	99	78	2	14	4	1.02
7006217--7006366	77	1.9	79	81	8	182	45	7	4	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7020320--7020420	48	2.1	48	87	3	141	51	17	7	22	1.71
7021634--7021676	9	4.5	10	82	8	54	32	0	13	53	1.41
7021634--7021676	19	2.3	19	100	0	86	32	0	13	53	1.41
7022322--7022355	17	2.0	17	94	0	59	26	0	2	70	1.01
7022421--7022478	15	4.1	14	76	13	57	20	3	0	75	0.94
7022448--7022478	5	6.2	5	100	0	62	19	0	0	80	0.71
7023123--7023167	21	2.1	21	100	0	90	28	17	0	53	1.44
7026466--7027029	292	1.9	292	98	0	1083	37	18	16	28	1.92
7029554--7029584	15	2.1	15	93	0	53	25	0	9	64	1.24
7030706--7030742	11	3.5	11	86	13	51	24	0	0	75	0.80
7030795--7030827	11	3.0	11	86	13	50	18	0	0	81	0.68
7030851--7030899	24	2.0	25	84	7	66	12	10	0	77	0.99
7033520--7033574	25	2.2	25	96	0	101	25	34	12	27	1.92
7037221--7037320	48	2.1	48	90	0	155	49	17	10	24	1.77
7041410--7041478	32	2.2	32	91	0	111	43	14	14	27	1.84
7042310--7042344	3	11.7	3	100	0	70	31	0	0	68	0.90
7042463--7042502	22	2.0	21	85	14	57	35	40	17	7	1.78
7047307--7047339	16	2.1	16	88	11	50	36	6	3	54	1.41
7048511--7048535	6	4.2	6	100	0	50	16	16	16	52	1.76
7057905--7057948	21	2.1	21	87	8	63	18	18	6	56	1.62
7069542--7069580	21	1.9	21	89	5	62	23	41	0	35	1.55
7073126--7073164	21	1.9	21	89	5	62	23	41	0	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7073614--7073664	21	2.3	21	86	6	66	35	0	17	47	1.48
7093554--7093579	3	8.7	3	100	0	52	0	0	34	65	0.93
7094326--7094372	20	2.2	21	78	17	53	61	0	2	36	1.08
7099884--7099966	34	2.4	34	76	4	87	27	15	13	43	1.84
7100628--7100658	16	1.9	16	93	0	53	19	35	6	38	1.77
7101690--7101729	21	2.0	20	85	14	55	12	5	20	62	1.48
7103417--7103461	18	2.6	17	85	3	63	37	11	8	42	1.72
7103417--7103488	17	4.2	17	83	1	81	37	12	6	43	1.70
7104734--7104783	22	2.3	22	75	3	57	28	22	4	46	1.70
7107204--7107274	34	2.1	33	82	7	81	22	26	15	35	1.94
7107637--7107752	54	2.1	54	91	0	196	18	19	34	26	1.96
7107675--7107761	19	4.7	19	72	21	69	18	22	32	26	1.97
7107790--7107862	20	3.8	20	73	14	82	26	19	28	26	1.98
7110606--7110656	22	2.3	23	89	3	77	19	23	17	39	1.92
7116985--7117157	81	2.1	81	98	0	337	34	20	16	28	1.95
7117295--7117326	16	2.0	16	93	0	55	18	34	6	40	1.76
7118641--7118666	2	13.0	2	100	0	52	50	0	0	50	1.00
7124418--7124570	80	1.9	80	84	0	207	36	25	15	22	1.93
7124932--7125159	22	10.0	22	78	17	193	48	0	6	45	1.28
7124931--7125159	70	3.3	68	92	5	372	48	0	6	45	1.28
7126025--7126049	5	5.0	5	100	0	50	20	0	0	80	0.72
7126120--7126146	12	2.2	12	100	0	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7127914--7127999	32	2.7	32	84	8	97	20	8	4	66	1.37
7127951--7127995	22	2.0	22	83	8	56	17	11	2	68	1.29
7128503--7128559	10	5.5	10	78	14	53	68	7	5	19	1.33
7128503--7128575	21	3.5	20	80	12	67	65	6	5	21	1.37
7128500--7128569	32	2.2	32	80	15	81	67	5	5	21	1.33
7128534--7128575	22	1.9	22	90	9	68	64	7	4	23	1.38
7129937--7130008	37	1.9	38	91	2	119	41	36	9	12	1.76
7130158--7130229	37	2.0	36	89	8	110	37	31	13	16	1.88
7129881--7130415	216	2.4	219	88	4	788	36	27	11	24	1.90
7131656--7131694	14	3.0	12	88	11	51	69	2	0	28	1.02
7131720--7131752	7	4.6	7	92	7	57	57	0	0	42	0.98
7135320--7135661	129	2.6	129	89	2	497	38	16	11	33	1.85
7137523--7137686	90	1.8	88	94	2	292	43	6	11	37	1.67
7139206--7139264	3	19.7	3	96	0	109	35	30	0	33	1.58
7139263--7139329	3	22.7	3	96	3	127	67	0	0	32	0.91
7139587--7139643	21	2.8	20	74	12	62	29	15	26	28	1.96
7140079--7140186	42	2.6	42	79	7	114	29	20	20	29	1.98
7139588--7140674	243	4.5	244	86	2	1472	33	17	16	33	1.92
7140588--7140667	42	1.9	42	84	0	106	35	20	18	26	1.95
7144728--7144793	31	2.2	31	86	2	89	19	15	9	56	1.66
7145324--7145370	12	4.0	12	91	2	78	65	8	14	10	1.45
7145324--7145370	23	2.0	24	91	4	78	65	8	14	10	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7150538--7151035	155	3.2	156	82	7	602	46	5	17	29	1.71
7153369--7153395	14	1.9	14	100	0	54	7	3	44	44	1.49
7153374--7153412	16	2.4	16	91	0	60	5	5	46	43	1.48
7153369--7153407	16	2.6	14	81	14	51	5	5	46	43	1.48
7153366--7153466	20	5.1	20	80	10	75	11	6	41	39	1.69
7153389--7153467	10	7.9	10	69	0	59	11	7	44	36	1.69
7153395--7153467	20	3.7	20	90	0	101	12	8	43	35	1.72
7154507--7154591	26	3.3	25	67	23	68	61	9	8	21	1.53
7154493--7154592	52	1.9	52	95	0	182	59	9	10	22	1.57
7157939--7158179	74	3.3	73	88	3	367	37	15	16	30	1.90
7157939--7158259	147	2.2	146	84	6	373	37	15	16	30	1.89
7158191--7158333	73	1.9	74	85	1	198	37	13	18	30	1.89
7158087--7158293	111	1.9	112	90	1	335	38	14	17	29	1.89
7169426--7169493	19	3.7	19	82	11	61	0	8	14	76	1.01
7169415--7169496	35	2.3	36	80	4	112	7	7	13	71	1.28
7169443--7169493	8	6.0	8	78	13	57	0	7	11	80	0.90
7179063--7179137	30	2.5	30	80	4	98	42	0	8	49	1.32
7180639--7182236	798	2.0	798	99	0	3169	36	13	19	31	1.90
7187941--7188157	112	1.9	113	89	2	339	37	19	11	31	1.87
7199860--7199898	21	1.9	20	84	5	51	28	15	17	38	1.91
7206450--7206540	43	2.1	42	97	2	173	50	8	18	21	1.74
7208634--7208700	30	2.2	31	89	5	102	46	2	2	47	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7211319--7211375	29	1.9	30	85	3	80	38	1	17	42	1.60
7213394--7213434	14	2.9	14	92	0	64	36	12	21	29	1.90
7217373--7217415	19	2.1	21	84	16	56	27	11	13	46	1.78
7218101--7218150	20	2.5	19	93	6	82	38	12	4	46	1.60
7223235--7223290	22	2.5	22	88	0	76	26	19	23	30	1.98
7223258--7223310	22	2.5	20	80	14	61	26	20	24	28	1.99
7224596--7224770	48	3.6	49	73	3	140	35	25	16	22	1.95
7234992--7235136	48	3.0	48	77	7	132	34	25	18	21	1.96
7234992--7235114	48	2.5	48	81	1	138	36	21	19	21	1.95
7235904--7235929	13	2.0	13	100	0	52	30	30	15	23	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