genome.fa.s7960.2.7.7.80.10.50.1000.22.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  22  of  39  ( 4646 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)
4387485--4387714	117	2.0	118	88	2	347	35	5	23	36	1.77
4387965--4388314	180	2.0	180	86	2	499	38	13	16	32	1.87
4388130--4389203	200	5.4	199	85	2	1397	38	14	14	32	1.87
4388144--4389205	399	2.7	400	89	2	1550	37	14	14	32	1.87
4389513--4389558	15	2.9	15	81	15	56	28	43	2	26	1.66
4389513--4389568	18	3.3	17	75	20	55	23	42	3	30	1.71
4393674--4395035	198	6.8	198	88	1	1724	39	14	13	32	1.85
4393701--4395035	397	3.4	397	86	2	1761	39	14	13	32	1.86
4393674--4395035	595	2.3	594	85	3	1784	39	14	13	32	1.85
4399218--4399900	194	3.5	197	84	5	852	39	14	14	31	1.85
4399916--4399972	23	2.4	23	76	2	69	36	17	10	35	1.84
4401096--4401173	10	8.1	10	74	23	60	57	21	12	7	1.60
4401109--4401139	14	2.2	14	94	0	53	51	25	19	3	1.62
4401119--4401181	23	2.7	23	80	11	83	58	25	11	4	1.51
4401437--4401472	14	2.6	14	90	0	54	61	11	13	13	1.58
4404442--4404474	17	1.9	17	93	0	57	45	12	9	33	1.73
4410863--4410888	12	2.2	12	100	0	52	38	0	34	26	1.57
4412450--4412611	40	4.1	40	95	0	297	22	16	27	33	1.96
4412716--4412933	46	4.7	45	86	4	258	38	7	21	32	1.82
4413246--4413332	33	2.6	33	92	0	138	26	24	19	29	1.98
4415565--4415603	21	1.9	20	85	15	53	25	10	23	41	1.86
4415672--4415792	6	19.8	6	76	9	59	72	0	21	4	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4415718--4415759	3	14.0	3	100	0	84	66	0	33	0	0.92
4419648--4419809	40	4.1	40	96	0	288	24	17	25	32	1.96
4419914--4420130	46	4.7	45	87	4	265	40	6	20	32	1.79
4419914--4420130	91	2.3	91	83	9	260	40	6	20	32	1.79
4420570--4420655	33	2.6	33	92	0	136	24	23	19	32	1.98
4426456--4426498	8	5.4	8	100	0	86	39	0	11	48	1.40
4430052--4430114	31	2.1	31	90	3	101	20	22	3	53	1.59
4430729--4430974	122	2.0	122	96	0	456	23	22	20	33	1.97
4431070--4431112	22	1.9	23	90	4	70	48	2	0	48	1.14
4431416--4431550	11	12.1	11	69	14	57	48	0	4	46	1.27
4431513--4431566	23	2.3	23	84	6	65	51	0	1	46	1.11
4432498--4432564	34	2.0	34	82	11	84	50	7	2	38	1.46
4438195--4438241	19	2.5	19	86	3	60	27	44	14	12	1.82
4439070--4439141	32	2.3	32	81	11	87	18	29	27	25	1.98
4447604--4447657	27	2.0	27	85	7	74	37	1	3	57	1.27
4447761--4447799	19	2.1	19	90	0	60	30	7	23	38	1.83
4457276--4457315	12	3.2	12	82	6	53	50	0	0	50	1.00
4463875--4463924	24	2.2	22	86	13	66	42	0	4	54	1.19
4463986--4464033	17	2.8	16	78	12	51	39	8	0	52	1.32
4465169--4465226	5	11.6	5	72	20	50	15	5	0	79	0.90
4465164--4465225	9	6.9	9	77	17	58	14	4	1	79	0.98
4465206--4465301	50	1.9	49	85	10	133	18	5	9	66	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4465207--4465324	50	2.4	49	81	14	131	18	5	8	67	1.35
4476289--4476347	23	2.6	23	91	0	91	23	30	27	18	1.98
4476302--4476370	21	3.2	22	79	8	70	21	30	27	20	1.98
4477940--4477978	18	2.2	18	85	0	51	35	30	25	7	1.84
4485086--4485172	32	2.7	31	85	5	113	33	16	17	33	1.92
4485067--4485190	32	3.9	33	78	9	107	32	16	17	33	1.92
4488671--4488821	79	1.9	81	81	8	184	33	25	15	25	1.95
4489147--4489209	2	32.5	2	75	12	51	39	0	4	55	1.21
4489147--4489244	19	5.4	19	72	20	77	38	1	7	53	1.35
4489153--4489210	29	2.0	28	86	10	80	37	0	5	56	1.21
4489166--4489243	31	2.5	31	79	12	88	39	1	6	52	1.35
4489281--4489342	2	33.0	2	74	18	53	43	4	0	51	1.23
4489288--4489350	19	3.1	19	76	15	63	39	6	0	53	1.26
4490911--4490941	16	1.9	16	100	0	62	45	12	16	25	1.83
4491958--4492026	18	3.8	18	76	16	63	13	7	1	78	1.02
4492047--4492087	21	2.0	21	85	0	55	19	4	0	75	0.98
4491996--4492117	48	2.6	50	80	13	143	17	4	5	72	1.23
4494709--4494740	13	2.4	14	94	5	57	75	0	9	15	1.05
4494820--4494876	21	2.6	21	81	15	71	47	5	5	42	1.48
4494855--4495201	36	9.3	36	85	5	399	45	5	3	44	1.45
4494855--4495202	74	4.7	72	85	6	410	45	5	3	44	1.45
4495125--4495149	11	2.3	11	100	0	50	44	8	8	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4495277--4495310	17	2.0	17	88	0	50	70	0	0	29	0.87
4508542--4508580	18	2.2	18	85	0	51	43	0	17	38	1.50
4508789--4508852	26	2.4	26	82	7	76	45	21	12	20	1.84
4510016--4510060	24	2.0	22	83	16	56	40	15	4	40	1.67
4512660--4512708	25	2.0	24	84	4	62	51	2	14	32	1.54
4519265--4519300	16	2.3	15	90	4	54	41	0	5	52	1.24
4519524--4519574	15	3.2	16	78	18	61	29	31	25	13	1.94
4521623--4521686	27	2.3	26	79	10	65	48	14	18	18	1.81
4521633--4521686	27	1.9	28	85	7	74	50	16	14	18	1.79
4529938--4529977	20	2.0	20	85	9	55	47	0	0	52	1.00
4535449--4535505	29	2.1	27	84	12	73	43	7	15	33	1.74
4535458--4535526	29	2.3	29	82	5	84	43	8	18	28	1.80
4537314--4537413	21	4.7	21	78	8	96	25	35	17	23	1.95
4538903--4538953	21	2.4	21	83	3	66	33	9	5	50	1.59
4539957--4540001	20	2.2	20	88	0	63	60	15	8	15	1.59
4543341--4543399	28	2.1	28	87	0	82	50	3	0	45	1.18
4543423--4543492	31	2.3	30	88	9	99	51	2	2	42	1.31
4543430--4543476	24	1.9	25	82	4	60	55	4	2	38	1.31
4543466--4543519	21	2.6	21	73	8	56	42	5	5	46	1.50
4543547--4543646	22	4.7	21	75	14	71	50	9	6	35	1.59
4543671--4543803	24	5.8	23	71	16	73	41	4	8	45	1.54
4543839--4543876	14	2.7	14	100	0	76	34	5	15	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4543959--4544193	2	123.0	2	63	23	62	44	4	2	47	1.39
4544067--4544163	11	9.6	11	65	18	50	46	3	5	45	1.41
4544053--4544146	15	6.3	14	66	29	52	44	4	5	45	1.45
4544101--4544165	18	3.6	18	84	12	71	47	1	4	46	1.32
4543959--4544193	9	26.2	9	64	27	60	44	4	2	47	1.39
4544242--4544291	26	1.9	26	88	8	75	44	10	6	40	1.63
4544270--4544465	18	10.7	18	68	22	88	41	9	8	41	1.67
4544330--4544371	20	2.1	20	86	8	59	45	7	4	42	1.52
4544360--4544406	24	2.0	24	87	8	69	48	8	4	38	1.53
4544397--4544470	33	2.3	32	90	4	114	40	8	8	43	1.64
4544600--4544649	22	2.3	22	86	6	66	48	6	4	42	1.46
4544703--4544762	11	5.5	11	75	23	56	43	3	1	51	1.28
4544611--4544769	20	7.7	20	68	18	85	47	4	3	45	1.38
4544816--4544864	18	2.6	19	90	6	73	38	4	10	46	1.57
4544901--4544947	22	2.2	21	78	17	53	44	4	0	51	1.21
4544981--4545692	215	3.3	209	85	4	978	28	11	8	51	1.66
4552805--4552945	75	1.9	76	96	1	266	21	16	20	41	1.90
4558663--4558815	77	2.0	79	84	7	206	42	8	4	44	1.55
4558838--4558867	15	1.9	16	93	6	53	46	6	6	40	1.56
4577083--4577123	16	2.4	17	80	19	50	43	4	0	51	1.23
4577246--4577270	13	1.9	13	100	0	50	60	0	0	40	0.97
4578655--4578745	31	2.9	31	83	1	101	36	5	13	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4581530--4581584	29	1.9	28	88	3	83	29	27	12	30	1.93
4581591--4581717	51	2.5	50	82	6	132	14	37	27	20	1.92
4581910--4581950	18	2.3	18	91	4	66	29	4	2	63	1.28
4584421--4584545	50	2.5	51	78	10	134	23	28	33	15	1.95
4590111--4590154	2	22.0	2	100	0	88	50	0	0	50	1.00
4590154--4590182	2	14.5	2	100	0	58	0	0	48	51	1.00
4594476--4594507	12	2.6	13	85	14	50	68	0	0	31	0.90
4601328--4601386	24	2.5	24	85	0	82	18	22	23	35	1.96
4602088--4602188	39	2.6	37	78	21	102	74	1	15	7	1.14
4602391--4602417	9	3.0	9	100	0	54	66	0	22	11	1.22

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