genome.fa.s8245.2.7.7.80.10.50.1000.26.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  26  of  33  ( 3922 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)
5225952--5226001	25	2.0	25	84	0	64	32	14	10	44	1.78
5227877--5227910	5	6.8	5	100	0	68	58	0	0	41	0.98
5227945--5228024	40	2.0	40	85	9	108	63	3	5	27	1.32
5228009--5228084	4	19.2	4	76	10	68	75	5	0	19	1.00
5228017--5228077	31	1.9	32	90	3	97	75	6	0	18	1.01
5228070--5228104	18	1.9	18	94	0	61	74	11	0	14	1.08
5229413--5229493	2	43.0	2	82	11	82	49	0	1	49	1.08
5229671--5229705	17	2.1	17	94	0	61	31	22	14	31	1.94
5230230--5231528	85	15.2	86	85	1	1612	25	18	21	34	1.96
5237792--5237833	22	1.9	22	85	9	59	71	4	2	21	1.16
5237878--5237902	10	2.5	10	100	0	50	84	0	16	0	0.63
5237899--5237936	19	1.9	19	89	5	58	84	7	2	5	0.86
5238133--5238234	38	2.6	38	77	15	100	64	2	5	26	1.30
5238196--5238274	21	3.8	21	83	9	83	74	1	2	21	1.01
5238218--5238328	42	2.6	42	76	17	106	73	4	1	19	1.09
5239561--5239598	2	19.0	2	100	0	76	50	0	0	50	1.00
5239715--5239741	12	2.2	12	100	0	54	40	44	0	14	1.46
5241790--5241815	2	13.0	2	100	0	52	50	0	0	50	1.00
5250975--5251029	20	2.8	20	83	5	67	47	16	14	21	1.82
5253150--5253252	32	3.3	31	86	6	138	34	21	19	24	1.96
5263058--5263101	20	2.3	19	88	4	61	11	20	31	36	1.88
5263058--5263116	10	6.1	9	75	14	55	15	23	28	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5263132--5263197	5	12.8	5	75	15	55	19	50	22	7	1.73
5263130--5263197	17	3.9	17	80	12	77	19	50	22	8	1.75
5263155--5263204	12	4.3	12	85	10	68	20	46	22	12	1.83
5270314--5270355	10	4.1	10	84	6	57	14	21	26	38	1.91
5270407--5270450	22	2.0	22	90	0	70	18	45	22	13	1.84
5272557--5272587	2	15.5	2	100	0	62	48	0	0	51	1.00
5276740--5276926	96	2.0	95	83	9	240	28	14	14	42	1.85
5277523--5277555	16	2.1	16	94	0	57	33	0	12	54	1.37
5284429--5285414	145	7.0	144	79	9	917	38	15	11	35	1.82
5284450--5285095	283	2.3	283	86	5	865	38	14	10	35	1.81
5285520--5285982	231	2.0	230	82	4	567	40	14	12	32	1.84
5289779--5289817	21	1.9	20	89	5	60	38	20	12	28	1.89
5293224--5293250	10	2.7	10	100	0	54	29	11	18	40	1.85
5305741--5306088	46	7.6	46	83	3	389	41	14	19	24	1.88
5305742--5306088	138	2.5	137	83	3	428	42	14	19	24	1.88
5307357--5307408	17	3.1	17	100	0	104	11	23	48	17	1.79
5314593--5314630	17	2.2	17	95	0	67	10	23	44	21	1.83
5314637--5314694	9	6.0	9	88	7	62	32	31	25	10	1.89
5314643--5314692	10	5.0	10	88	7	66	36	30	24	10	1.88
5314643--5314696	21	2.7	20	86	8	74	35	31	24	9	1.87
5315683--5315737	21	2.6	21	94	0	101	34	23	14	27	1.94
5315898--5316134	100	2.4	99	87	2	314	33	13	13	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5326263--5326311	17	2.9	17	90	0	80	44	4	10	40	1.57
5327160--5327202	21	2.0	22	86	4	61	30	23	11	34	1.90
5327285--5327338	12	4.5	12	88	9	74	27	5	55	11	1.57
5327351--5327395	21	2.1	21	83	0	54	53	6	20	20	1.67
5328468--5328914	222	2.0	223	99	0	887	40	11	10	37	1.76
5331294--5331374	42	2.0	42	82	2	101	34	22	19	23	1.96
5331437--5331790	53	6.7	53	81	4	347	39	18	9	32	1.84
5331433--5331764	159	2.1	161	84	6	446	40	18	9	31	1.83
5331755--5331947	54	3.5	55	78	13	216	47	16	7	28	1.74
5340676--5340966	147	2.0	145	95	4	530	26	18	7	47	1.75
5341338--5341899	54	10.4	54	91	2	760	27	18	20	33	1.96
5341343--5341899	159	3.4	159	87	5	753	27	18	20	33	1.96
5343304--5343636	100	3.3	98	82	6	373	42	10	11	35	1.74
5349539--5349578	21	1.9	21	89	0	62	25	40	25	10	1.86
5353218--5353252	6	5.8	6	86	0	52	34	14	0	51	1.42
5354294--5354972	100	6.8	99	85	3	848	40	13	12	33	1.82
5354294--5354970	198	3.4	197	85	3	860	40	13	12	33	1.82
5354891--5355123	75	3.1	75	82	5	265	44	13	9	32	1.76
5355730--5356125	108	3.6	108	88	3	546	34	14	13	38	1.85
5355735--5356125	216	1.8	218	88	4	603	34	14	13	37	1.86
5358823--5358931	42	2.6	42	95	0	191	22	24	33	19	1.97
5358823--5358937	21	5.5	21	85	8	162	20	25	34	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5358942--5358988	21	2.2	21	84	0	58	21	10	42	25	1.85
5360504--5360568	27	2.4	27	82	5	69	58	4	0	36	1.19
5360520--5360573	17	3.2	17	78	2	56	59	3	0	37	1.15
5367884--5367955	3	24.0	3	78	10	76	41	0	0	58	0.98
5369357--5369391	2	17.5	2	87	0	52	48	0	0	51	1.00
5369645--5369686	20	2.2	19	86	4	57	33	0	2	64	1.07
5370274--5370338	28	2.2	29	81	10	71	32	6	1	60	1.31
5370297--5370346	20	2.4	21	83	9	59	28	4	2	66	1.21
5375320--5375379	15	3.9	15	85	8	77	81	0	16	1	0.77
5375334--5375379	8	5.8	8	87	7	67	80	0	17	2	0.81
5375320--5375380	16	3.9	16	85	6	81	81	0	16	1	0.76
5380093--5380150	22	2.6	22	86	2	71	37	6	12	43	1.69
5380820--5381370	46	12.0	46	96	0	1014	24	21	19	34	1.97
5381581--5381655	3	25.0	3	81	10	91	40	0	0	60	0.97
5383030--5383067	2	19.5	2	89	5	60	44	0	0	55	0.99
5383319--5383360	20	2.2	19	86	4	57	33	0	2	64	1.07
5383416--5383472	29	2.0	29	86	6	80	47	1	0	50	1.11
5383472--5383587	39	3.3	39	62	26	103	46	1	5	46	1.35
5383462--5383594	66	2.0	66	100	0	266	45	3	4	47	1.38
5387024--5387054	16	1.9	16	100	0	62	45	6	12	35	1.68
5387052--5387143	22	3.9	23	71	9	62	54	0	5	40	1.23
5388183--5388285	2	51.5	2	92	3	172	46	0	0	52	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5388694--5388734	20	2.0	21	90	4	66	31	21	14	31	1.94
5391395--5391479	44	1.9	44	95	0	152	31	17	21	29	1.96
5391399--5391477	24	3.5	24	67	13	76	31	17	18	31	1.95
5392017--5392057	2	20.5	2	100	0	82	51	0	0	48	1.00
5393316--5393476	45	3.6	44	87	4	223	25	21	6	45	1.76
5393517--5393909	68	5.8	68	89	0	588	28	24	14	32	1.95
5395204--5395249	18	2.6	18	96	3	85	21	23	15	39	1.92
5397165--5397265	22	4.8	20	77	15	71	31	14	22	30	1.94
5397166--5397265	42	2.4	40	79	11	103	31	15	23	31	1.95
5397193--5397245	22	2.5	21	87	6	72	33	15	20	30	1.93
5399035--5399356	40	8.1	40	94	0	572	33	26	16	23	1.96
5403281--5403327	21	2.2	21	92	0	76	57	19	14	8	1.63
5403288--5403331	21	2.1	21	100	0	88	52	20	13	13	1.74
5408323--5408369	20	2.3	20	100	0	94	53	17	0	29	1.44
5408747--5408802	20	2.8	20	77	0	58	35	12	19	32	1.89
5408893--5408935	21	2.0	21	95	0	77	37	18	20	23	1.94
5408898--5408948	21	2.4	21	86	0	66	39	17	15	27	1.90
5411604--5411654	20	2.5	20	83	0	66	35	9	19	35	1.85
5411722--5411800	21	3.8	21	93	0	122	37	18	18	24	1.94
5415078--5415110	17	2.1	16	88	11	50	30	9	0	60	1.27
5417786--5417838	18	2.9	19	77	8	65	26	32	18	22	1.97
5420931--5420994	2	31.5	2	96	3	119	48	1	0	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5422528--5422572	23	2.0	23	87	8	67	22	13	33	31	1.92
5423238--5423306	2	34.5	2	100	0	138	50	0	0	49	1.00
5426384--5426421	20	2.0	19	90	10	60	47	10	23	18	1.79
5426383--5426427	20	2.6	16	80	19	54	44	11	22	22	1.84
5430515--5430548	3	11.7	3	90	6	52	26	0	2	70	1.01
5430811--5430852	19	2.2	20	86	4	59	42	14	0	42	1.45
5436981--5437015	18	1.9	18	88	0	52	34	14	5	45	1.68
5437753--5437805	23	2.3	23	93	6	90	43	0	7	49	1.31
5441098--5441122	8	3.1	8	100	0	50	88	12	0	0	0.53
5441300--5441351	25	2.1	25	82	7	61	7	7	44	40	1.62

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