genome.fa.s8620.2.7.7.80.10.50.1000.27.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   55   56   57   58   59   60   61   62   63   64   

This is table  27  of  64  ( 7674 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)
5293619--5293679	11	5.9	11	72	18	51	57	3	1	37	1.25
5294172--5294201	7	4.1	7	91	8	51	40	43	0	16	1.48
5294172--5294200	15	1.9	15	100	0	58	41	44	0	13	1.44
5294560--5294595	18	1.9	19	94	5	65	66	5	5	22	1.34
5302221--5302374	39	3.9	39	83	5	170	30	24	26	18	1.98
5302212--5302366	78	2.0	78	82	5	188	29	23	27	19	1.98
5310349--5310475	61	2.2	56	79	15	152	34	34	7	22	1.83
5310390--5310491	33	3.2	33	68	18	99	35	30	7	26	1.85
5310370--5310491	61	2.0	61	98	0	235	33	31	8	27	1.86
5311360--5312289	42	21.6	45	77	9	310	39	16	17	26	1.91
5311366--5311616	90	2.8	90	80	6	244	40	17	15	26	1.89
5311547--5312289	42	17.4	42	82	3	759	39	15	18	26	1.90
5317775--5317817	22	1.9	23	95	4	79	13	27	32	25	1.94
5327415--5327449	17	2.0	18	88	5	54	22	20	11	45	1.82
5327781--5327828	7	6.9	7	100	0	96	43	27	14	14	1.84
5330254--5330349	33	2.9	33	86	6	124	16	14	18	50	1.79
5336233--5336266	18	1.9	18	88	5	52	50	0	20	29	1.49
5337386--5337493	24	4.5	25	75	12	91	20	15	15	48	1.82
5337423--5337492	12	5.8	12	76	6	61	17	14	17	51	1.77
5337386--5337491	48	2.2	48	81	6	117	19	16	15	49	1.80
5338468--5338501	17	2.0	17	94	0	59	32	17	5	44	1.73
5340035--5340106	31	2.4	31	85	2	92	36	23	2	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5348910--5348949	2	19.5	2	94	5	71	47	2	0	50	1.14
5355682--5355740	29	2.0	29	80	6	66	20	11	8	59	1.58
5359571--5359619	21	2.3	21	92	0	80	38	26	12	22	1.89
5361889--5362109	117	1.9	117	84	1	300	24	22	16	36	1.94
5362020--5362331	91	3.4	89	89	2	437	23	22	15	38	1.93
5362307--5362341	17	2.1	17	100	0	70	22	22	5	48	1.72
5362255--5362400	69	2.1	69	92	0	238	26	19	15	39	1.91
5364492--5364546	23	2.4	21	77	16	56	7	16	0	76	1.00
5372001--5372051	19	2.6	20	87	6	77	27	25	21	25	1.99
5373742--5373786	21	2.1	21	95	0	81	35	8	26	28	1.87
5373742--5373795	21	2.6	21	87	0	63	31	12	27	27	1.93
5378343--5378389	22	2.1	22	92	0	76	57	0	2	40	1.11
5378418--5378468	22	2.3	21	83	16	59	41	1	0	56	1.10
5380243--5380598	194	1.8	193	84	3	482	37	12	11	39	1.79
5380243--5380650	194	2.1	192	82	4	473	36	12	12	38	1.81
5385186--5385235	22	2.2	23	85	3	66	6	20	36	38	1.77
5385464--5385505	17	2.5	17	88	0	57	57	2	4	35	1.33
5391581--5391991	146	2.8	145	85	2	554	34	13	15	36	1.86
5403391--5403424	2	16.5	2	93	6	59	47	2	0	50	1.16
5403936--5403984	3	17.3	3	83	12	68	32	0	0	67	0.91
5403935--5403989	22	2.4	22	87	6	74	32	0	0	67	0.91
5403935--5403991	28	2.0	28	90	6	89	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5403939--5403984	19	2.3	20	85	7	67	32	0	0	67	0.91
5405409--5405458	12	4.2	12	78	12	59	28	2	2	68	1.12
5405650--5405713	33	2.0	32	84	3	83	46	1	0	51	1.10
5414641--5414728	46	1.9	46	85	0	122	36	13	22	27	1.92
5415164--5415283	22	5.5	22	92	0	204	32	14	14	39	1.86
5415958--5416134	74	2.3	76	85	4	241	27	19	19	33	1.96
5416163--5417598	112	12.6	112	90	4	2049	38	13	19	28	1.90
5417154--5417601	124	3.7	124	82	10	579	39	13	18	27	1.89
5417933--5417975	3	15.3	3	81	13	56	32	0	0	67	0.91
5417931--5417980	22	2.2	23	85	7	75	34	0	0	66	0.92
5418626--5418673	21	2.3	21	89	3	71	16	16	45	20	1.85
5419407--5419449	12	3.7	12	81	6	61	30	2	2	65	1.18
5426684--5426719	18	2.0	18	94	0	63	52	0	22	25	1.47
5443052--5443104	20	2.7	20	96	0	97	24	35	26	13	1.92
5446202--5446837	268	2.4	265	80	7	664	33	18	17	31	1.94
5446250--5446835	134	4.4	134	79	4	533	33	18	17	30	1.94
5447543--5447851	135	2.3	135	83	7	380	44	15	14	24	1.85
5447474--5447851	45	8.4	45	78	6	340	44	16	15	23	1.85
5447543--5447956	45	9.4	42	75	8	265	41	16	16	25	1.89
5447811--5447972	84	1.9	84	83	2	209	37	16	20	25	1.93
5447793--5448015	42	5.2	42	78	4	187	38	16	20	24	1.93
5448377--5449182	260	3.1	259	84	2	1001	35	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5449003--5449356	174	2.0	182	88	7	546	33	20	20	26	1.97
5449677--5450256	235	2.3	254	91	7	921	31	19	17	31	1.95
5458300--5458358	3	19.7	3	89	6	93	66	0	1	32	1.02
5464374--5464777	45	9.0	45	84	0	511	43	13	17	25	1.85
5471354--5471758	45	9.0	45	87	0	542	42	12	20	25	1.86
5479229--5479264	18	1.9	19	94	5	65	19	0	0	80	0.71
5482442--5482518	39	2.0	38	82	5	93	48	3	1	46	1.28
5482995--5483044	9	5.6	9	92	7	84	44	0	14	42	1.44
5482994--5483044	17	2.9	17	94	5	84	43	0	13	43	1.44
5493771--5493837	32	2.1	32	94	0	116	20	22	16	40	1.91
5500194--5500283	29	3.1	29	80	12	71	66	7	1	24	1.25
5500247--5500283	13	3.1	12	92	7	58	75	8	0	16	1.02
5501960--5502751	408	1.9	407	87	2	1140	27	20	17	33	1.96
5501986--5502758	136	5.7	136	85	1	994	27	21	17	33	1.96
5503689--5503771	5	16.2	5	75	19	66	2	19	0	78	0.86
5503692--5503774	6	14.3	6	74	11	59	2	20	0	77	0.89
5503690--5503747	13	4.3	13	77	16	64	0	18	0	81	0.70
5503689--5503774	17	5.1	17	76	11	79	2	19	0	77	0.87
5503692--5503774	11	7.7	11	78	16	68	2	20	0	77	0.89
5506657--5506775	64	1.9	63	83	1	157	36	23	16	23	1.95
5507796--5507866	22	3.4	22	71	25	80	47	5	21	25	1.72
5511480--5511599	64	1.9	64	84	3	161	35	23	17	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5525967--5526025	11	5.1	12	86	8	52	77	5	0	16	0.93
5525970--5526025	6	9.3	6	75	14	53	78	3	0	17	0.89
5525984--5526025	11	3.6	11	93	6	66	80	2	0	16	0.81
5530580--5530640	18	3.4	18	75	8	61	21	39	22	16	1.92
5537403--5537470	3	22.0	3	87	3	91	39	0	0	60	0.97
5539034--5539078	22	2.0	22	86	8	63	42	0	0	57	0.98
5539128--5539182	23	2.3	26	78	12	64	40	5	0	54	1.23
5550370--5550426	8	6.9	8	84	15	80	84	0	15	0	0.63
5550370--5550426	17	3.4	17	92	7	91	84	0	15	0	0.63
5551426--5551987	114	5.0	114	92	1	830	35	14	19	30	1.92
5552728--5553260	113	4.7	111	87	4	626	37	13	19	29	1.90
5552728--5553260	229	2.4	223	83	6	655	37	13	19	29	1.90
5553179--5553471	124	2.4	122	85	6	389	41	15	19	23	1.89
5553572--5553633	3	20.0	3	86	3	79	40	0	0	59	0.97
5556686--5556822	46	3.0	45	80	4	148	25	16	18	38	1.92
5556997--5557170	86	2.0	86	100	0	348	24	9	10	56	1.62
5558612--5558646	2	17.5	2	100	0	70	51	0	0	48	1.00
5558813--5558882	24	2.9	24	82	0	86	51	17	15	15	1.77
5558826--5558878	12	4.5	11	77	15	52	50	16	15	16	1.78
5558842--5558917	24	3.2	24	75	7	66	46	18	14	21	1.84
5565475--5565558	41	2.0	42	83	2	107	25	4	9	60	1.47
5566235--5566273	17	2.3	17	90	0	69	38	15	38	7	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5570227--5570260	11	3.1	11	100	0	68	91	0	8	0	0.43
5571486--5572155	134	5.0	134	83	0	833	32	21	15	30	1.95
5571486--5572155	267	2.5	266	83	2	851	32	21	15	30	1.95
5572364--5572411	3	16.0	3	80	0	51	37	6	0	56	1.25
5574490--5574824	131	2.6	127	81	4	370	32	8	17	41	1.80
5575327--5575385	20	3.0	20	84	0	82	22	33	28	15	1.94
5576634--5576681	19	2.5	20	82	3	62	52	6	12	29	1.63
5578841--5578900	12	5.0	12	76	8	68	51	18	15	15	1.76
5578836--5578923	24	3.7	24	84	3	106	48	18	13	19	1.80
5578833--5578937	48	2.2	48	83	6	124	48	17	16	18	1.81

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   55   56   57   58   59   60   61   62   63   64