genome.fa.s1279.2.7.7.80.10.50.1000.27.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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   

This is table  27  of  29  ( 3433 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)
6318636--6318668	18	1.9	17	88	11	50	21	21	9	48	1.77
6318817--6318852	2	18.0	2	100	0	72	50	0	0	50	1.00
6321249--6321312	24	2.9	22	77	13	69	21	28	18	31	1.97
6325204--6325236	18	1.9	17	88	11	50	21	21	9	48	1.77
6332094--6332326	115	2.0	115	98	0	448	33	12	9	45	1.74
6337884--6337924	16	2.3	18	88	12	59	34	7	0	58	1.26
6342881--6343058	90	2.0	90	88	0	266	37	10	16	35	1.83
6352704--6352766	29	2.1	31	85	5	85	42	6	19	31	1.76
6358538--6358571	17	1.9	18	94	5	61	17	44	23	14	1.86
6358616--6358683	29	2.3	29	89	2	100	29	7	25	38	1.83
6365801--6365837	18	2.1	18	95	5	67	16	51	21	10	1.74
6365881--6365949	29	2.3	29	90	2	102	28	10	26	34	1.89
6374021--6374053	2	16.5	2	100	0	66	51	0	0	48	1.00
6374259--6374315	24	2.3	24	82	11	71	43	0	7	49	1.29
6378797--6378841	2	23.5	2	80	17	51	42	2	0	55	1.12
6379208--6379252	3	15.0	3	100	0	90	66	0	0	33	0.92
6379451--6379475	2	12.5	2	100	0	50	48	0	0	52	1.00
6380532--6380594	27	2.3	27	91	0	99	33	14	0	52	1.42
6380546--6380597	13	4.0	12	74	16	50	32	19	0	48	1.49
6382332--6382402	22	3.7	18	68	20	54	40	1	1	56	1.17
6382737--6383004	30	9.3	29	71	16	143	55	1	3	38	1.27
6382795--6382860	24	2.9	24	78	13	68	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6382847--6382935	27	3.3	27	75	12	92	57	3	4	34	1.36
6382815--6383029	58	3.7	60	73	19	172	56	1	3	39	1.24
6382927--6383027	30	3.4	29	78	11	107	55	0	2	41	1.15
6383154--6383192	19	2.1	19	95	0	69	33	28	15	23	1.95
6383216--6383323	20	5.3	20	70	10	85	30	24	19	25	1.98
6383216--6383322	40	2.6	41	86	4	146	30	23	19	26	1.98
6383156--6383344	40	4.7	39	73	16	145	31	24	17	26	1.97
6384142--6384195	24	2.2	24	93	0	90	20	18	20	40	1.91
6384385--6384421	14	2.6	14	91	4	56	51	21	21	5	1.68
6386552--6386821	140	1.9	140	95	0	486	29	12	14	42	1.83
6386792--6386956	20	8.9	20	71	17	113	34	21	18	26	1.96
6386800--6386991	54	3.6	54	84	2	199	35	22	17	23	1.95
6387151--6387212	14	4.3	14	77	6	61	46	14	0	38	1.45
6388600--6388693	42	2.2	42	84	3	118	21	18	37	23	1.94
6388615--6388701	21	4.1	21	72	0	75	24	18	36	20	1.95
6389174--6389211	19	2.0	20	89	5	60	50	18	10	21	1.76
6389175--6389217	19	2.2	20	83	4	52	51	18	13	16	1.77
6389207--6389252	20	2.3	20	96	0	83	36	26	23	13	1.91
6389257--6389319	19	3.3	19	86	4	83	46	25	15	12	1.82
6389319--6389414	33	2.8	33	84	3	120	15	20	21	41	1.90
6389386--6389434	20	2.5	20	93	0	80	14	20	26	38	1.91
6391836--6391886	22	2.3	22	93	0	84	21	9	43	25	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6392031--6392105	21	3.6	21	68	10	64	22	16	24	37	1.93
6392028--6392164	41	3.4	41	84	5	154	27	16	22	34	1.95
6392052--6392164	20	5.6	20	74	10	86	26	16	23	32	1.96
6402434--6402479	21	2.2	21	88	0	65	30	28	26	15	1.96
6403226--6403381	31	5.0	31	92	1	251	20	19	22	37	1.95
6406547--6406592	21	2.2	21	88	0	65	30	28	26	15	1.96
6407335--6407490	31	5.0	31	92	1	251	20	19	22	37	1.95
6411800--6411845	22	2.1	22	91	0	74	39	8	15	36	1.78
6415232--6415313	38	2.2	38	86	4	112	39	12	18	30	1.87
6415410--6415571	19	8.6	20	76	7	101	35	20	6	37	1.78
6415410--6415603	38	5.1	38	73	7	137	35	20	6	38	1.79
6415411--6415589	19	9.5	18	74	11	89	35	20	6	38	1.77
6416007--6416049	16	2.7	16	92	0	68	62	6	6	23	1.45
6416067--6416125	31	1.9	31	92	0	100	42	6	10	40	1.65
6416153--6416194	21	2.0	21	90	4	66	50	11	0	38	1.40
6416155--6416202	21	2.2	22	81	7	53	54	12	0	33	1.38
6416259--6416327	30	2.3	30	82	9	79	53	17	0	28	1.44
6416289--6416554	47	5.4	47	70	18	175	53	16	0	30	1.44
6416158--6416532	77	4.9	77	87	8	525	52	16	0	31	1.44
6416158--6416532	150	2.4	155	90	6	563	52	16	0	31	1.44
6416480--6416586	30	3.8	30	73	24	99	52	14	0	33	1.41
6416437--6416583	51	3.0	51	84	10	189	52	15	0	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6416513--6416553	21	2.0	21	95	0	73	51	14	0	34	1.43
6416515--6416561	21	2.2	21	84	3	58	55	14	0	29	1.40
6416362--6416662	128	2.4	123	88	7	434	52	15	0	31	1.44
6416298--6416754	150	3.0	149	80	12	390	52	16	0	30	1.44
6416568--6416639	22	3.1	22	76	13	65	54	18	0	27	1.44
6416242--6416816	278	2.0	285	93	4	999	52	16	0	31	1.44
6416480--6416863	79	4.9	80	87	10	521	52	14	0	32	1.42
6416747--6416792	22	2.0	22	87	4	65	54	15	0	30	1.41
6416764--6416839	32	2.4	32	95	0	134	55	9	0	35	1.32
6416769--6416825	18	3.4	18	69	18	59	54	12	0	33	1.38
6416787--6416962	14	11.5	15	73	17	130	50	3	0	45	1.22
6416875--6416962	29	3.0	29	88	9	135	48	0	1	50	1.08
6420799--6420827	5	5.8	5	100	0	58	37	20	0	41	1.53
6421011--6421202	36	5.2	36	77	8	179	38	16	13	32	1.87
6421976--6422360	19	20.4	19	76	5	271	33	22	10	34	1.88
6421981--6422360	38	10.1	37	73	8	302	32	22	10	34	1.87
6422399--6422447	19	2.6	19	87	6	64	38	16	12	32	1.86
6429734--6429937	87	2.3	87	81	0	228	29	14	22	33	1.94
6430352--6430416	27	2.4	27	82	7	87	23	27	23	26	2.00
6430700--6430747	22	2.3	20	85	7	60	25	16	29	29	1.97
6430734--6430791	21	2.8	21	97	0	107	25	18	34	20	1.96
6430872--6430931	30	2.0	30	93	0	102	45	18	5	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6441999--6442048	25	2.0	25	92	0	82	32	0	16	52	1.44
6444873--6444899	2	13.5	2	100	0	54	51	0	0	48	1.00
6451156--6451222	12	5.6	12	71	7	55	16	13	17	52	1.75
6451156--6451227	24	3.0	24	87	0	108	18	12	18	51	1.76
6455937--6455990	24	2.2	24	86	0	72	16	12	16	53	1.73
6460671--6460742	24	3.0	23	80	6	72	20	9	16	52	1.72
6467537--6467606	24	2.9	24	86	0	95	18	35	17	28	1.93
6469721--6469767	18	2.6	18	100	0	94	25	21	17	36	1.94
6474058--6474096	20	2.0	20	84	0	51	53	0	0	46	1.00
6477981--6478041	22	2.7	23	77	10	63	57	6	0	36	1.25
6478004--6478038	11	3.2	11	83	0	52	65	0	0	34	0.93
6478004--6478050	22	2.1	22	92	0	76	61	0	2	36	1.08
6479244--6479291	21	2.2	23	85	7	64	39	22	2	35	1.66
6481355--6481399	18	2.4	18	88	3	63	28	2	4	64	1.25
6481404--6481474	35	2.0	35	97	0	133	46	14	18	21	1.83
6481617--6481661	18	2.4	19	88	3	65	64	4	2	28	1.25
6484210--6484257	20	2.5	19	83	10	53	64	0	6	29	1.18
6484232--6484269	20	1.9	20	88	0	58	60	0	2	36	1.11
6485369--6485438	22	3.1	22	83	6	79	38	1	4	55	1.28
6487053--6487088	2	18.0	2	100	0	72	50	0	0	50	1.00
6492327--6492420	48	2.0	48	86	0	134	50	17	11	21	1.77
6492331--6492400	12	5.8	12	73	6	61	51	18	12	17	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6492329--6492421	24	3.9	24	79	0	96	49	17	11	21	1.78
6492330--6492437	24	4.5	24	72	6	85	48	16	13	21	1.81
6494814--6494838	13	1.9	13	100	0	50	24	24	32	20	1.98
6496917--6497022	24	4.4	24	75	5	72	51	14	9	24	1.71
6501549--6501636	24	3.7	24	83	3	106	50	18	9	22	1.75
6501542--6501650	48	2.3	47	82	6	130	50	17	11	21	1.76
6501542--6501650	24	4.5	25	78	4	100	50	17	11	21	1.76
6504112--6504166	13	4.3	13	86	4	76	23	23	36	16	1.94
6504111--6504163	25	2.1	25	89	0	79	24	24	35	15	1.94
6510384--6510452	23	3.0	23	80	0	84	28	26	21	23	1.99

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