genome.fa.s9643.2.7.7.80.10.50.1000.21.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  21  of  41  ( 4862 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)
4408827--4408900	36	2.1	36	87	10	107	20	31	16	32	1.94
4410763--4410791	14	2.0	15	93	6	51	37	0	0	62	0.96
4411348--4411408	32	1.9	31	87	9	88	68	0	8	22	1.15
4417842--4417894	24	2.3	23	87	9	72	35	24	11	28	1.90
4425820--4425902	29	2.8	29	87	1	121	42	10	15	31	1.82
4429264--4429293	15	2.0	15	93	0	51	13	0	30	56	1.37
4430572--4430654	29	2.8	29	87	1	121	42	10	15	31	1.82
4436977--4437019	3	14.0	3	90	4	68	62	0	2	34	1.08
4437238--4437341	45	2.3	45	81	3	111	35	17	19	27	1.94
4437275--4437416	75	1.9	74	91	1	230	36	19	21	23	1.95
4437172--4437461	120	2.4	121	84	2	370	34	19	20	25	1.96
4437349--4437686	45	7.5	45	92	0	496	31	20	24	23	1.98
4437628--4437825	74	2.7	73	88	2	288	33	18	20	26	1.96
4437777--4437870	45	2.1	45	91	0	152	28	18	23	29	1.97
4437694--4437972	119	2.3	119	92	1	452	32	19	21	26	1.97
4439040--4439283	54	4.5	54	86	0	310	27	23	13	35	1.92
4442151--4442422	134	2.0	137	90	3	435	33	23	12	30	1.92
4443301--4443326	12	2.2	12	100	0	52	7	38	11	42	1.70
4444664--4444733	35	2.0	34	86	2	95	60	10	11	18	1.58
4444793--4444833	6	6.0	7	83	16	59	56	12	14	17	1.68
4444911--4444993	43	1.9	43	85	0	112	34	24	10	30	1.89
4445447--4445515	36	1.9	36	87	0	102	31	8	17	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4448829--4448855	3	9.0	3	100	0	54	66	0	0	33	0.92
4450645--4450704	23	2.6	23	73	19	70	43	15	21	20	1.88
4452322--4452389	31	2.2	31	94	0	118	57	5	13	23	1.58
4456626--4456650	2	12.5	2	100	0	50	52	0	0	48	1.00
4458625--4458732	57	1.9	57	90	3	173	42	12	11	33	1.79
4471268--4471315	20	2.4	20	100	0	96	10	22	22	43	1.84
4471307--4471378	22	3.4	22	73	11	87	18	18	25	38	1.92
4471287--4471400	41	2.8	40	91	4	165	17	17	22	42	1.89
4471328--4471393	19	3.3	19	72	12	69	18	16	21	43	1.87
4471307--4471400	41	2.3	41	98	0	179	19	15	23	41	1.90
4471484--4471517	13	2.6	13	100	0	68	32	35	14	17	1.91
4483281--4483327	21	2.2	21	88	0	67	70	6	0	23	1.10
4484735--4484798	25	2.6	25	77	2	67	56	0	1	42	1.09
4489061--4489150	45	2.0	45	88	0	135	51	6	2	40	1.41
4489085--4489152	20	3.2	20	73	18	73	48	8	1	41	1.43
4489154--4489222	21	3.3	21	91	4	104	37	2	1	57	1.22
4491354--4491422	20	3.5	20	79	0	75	31	17	13	37	1.88
4491811--4492141	48	7.0	48	84	4	339	32	25	17	24	1.97
4491811--4492141	141	2.3	144	80	4	364	32	25	17	24	1.97
4492228--4492329	52	2.0	52	84	3	134	41	18	2	37	1.66
4495318--4495920	253	2.4	249	89	5	903	27	11	19	41	1.85
4496275--4496321	18	2.7	18	90	3	69	27	29	8	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4519336--4519366	16	1.9	16	100	0	62	70	0	3	25	1.02
4519352--4519391	19	2.2	19	86	4	55	75	0	5	20	0.99
4530892--4531013	65	1.9	64	88	5	183	32	17	20	29	1.95
4530892--4531025	64	2.1	65	86	6	184	30	18	20	29	1.97
4530933--4531096	64	2.5	65	80	8	165	30	17	21	29	1.97
4533239--4533281	15	2.8	16	92	7	79	13	27	32	25	1.94
4533344--4533375	17	1.9	17	93	6	57	9	25	34	31	1.87
4534203--4534299	23	4.5	21	78	8	90	28	24	24	21	1.99
4537959--4537998	20	2.0	21	85	5	55	27	15	10	47	1.77
4538108--4538150	22	2.0	21	86	13	61	39	6	2	51	1.42
4538156--4538487	165	2.0	165	100	0	664	29	24	13	32	1.93
4540227--4540428	64	3.1	63	80	7	190	29	15	22	32	1.95
4553531--4553560	16	1.9	15	93	6	51	46	0	13	40	1.43
4556574--4556650	29	2.7	29	97	2	147	18	20	15	45	1.85
4557429--4557467	2	19.5	2	100	0	78	48	0	0	51	1.00
4557522--4557559	14	2.5	16	83	12	53	65	0	0	34	0.93
4557645--4557718	15	5.1	14	74	23	64	60	1	8	29	1.33
4559132--4559236	45	2.3	45	83	6	124	29	15	18	37	1.91
4561008--4561394	196	2.0	197	98	0	749	30	20	18	30	1.97
4562472--4562504	12	2.8	12	100	0	66	48	15	9	27	1.74
4565726--4565802	29	2.7	29	93	2	138	18	19	16	45	1.86
4566185--4566341	64	2.5	63	78	6	165	27	17	19	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4572927--4572980	28	2.0	27	82	10	65	25	11	0	62	1.28
4573223--4573256	2	17.0	2	93	0	59	47	0	0	52	1.00
4575157--4575212	29	1.9	29	85	7	78	37	7	19	35	1.79
4575288--4575345	29	2.0	30	89	3	91	31	3	17	48	1.64
4582650--4582707	29	2.0	30	89	3	91	31	3	17	48	1.64
4593443--4593484	10	4.1	10	93	3	66	85	0	14	0	0.59
4593847--4593883	18	2.1	18	89	0	56	27	13	2	56	1.50
4595805--4595833	2	14.5	2	100	0	58	51	0	0	48	1.00
4596203--4596246	21	2.1	21	86	0	61	22	22	18	36	1.95
4596236--4596348	20	5.7	20	92	0	181	40	19	18	21	1.91
4596545--4596610	22	3.0	22	88	0	96	22	39	16	21	1.92
4596957--4597066	20	5.9	19	76	15	104	14	20	23	41	1.89
4598903--4599015	20	6.3	20	69	26	65	41	22	18	17	1.90
4598906--4598999	33	2.8	34	83	3	127	44	22	19	13	1.85
4599066--4599162	20	4.8	20	93	0	131	23	18	19	38	1.93
4599656--4599760	21	5.0	21	71	3	86	20	36	19	23	1.95
4599653--4599761	42	2.6	43	74	11	109	20	36	19	23	1.95
4601144--4601179	14	2.6	14	90	0	54	30	0	22	47	1.52
4601285--4601380	33	2.8	33	90	3	138	43	20	22	12	1.86
4601318--4601385	20	3.8	19	72	21	74	47	19	22	11	1.81
4601391--4601457	20	3.7	19	73	20	72	11	22	19	46	1.82
4601417--4601470	14	3.5	14	73	22	54	11	24	20	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4601395--4601490	33	2.9	34	90	3	149	12	23	20	42	1.86
4601462--4601530	20	3.5	20	88	4	104	17	21	24	36	1.95
4603272--4603325	24	2.2	24	93	0	90	40	16	18	24	1.90
4603272--4603339	24	2.8	24	84	0	64	38	16	17	27	1.91
4603775--4603850	11	6.6	11	75	19	66	26	22	25	26	2.00
4603774--4603841	23	2.9	23	88	2	91	23	22	26	27	1.99
4604227--4604313	26	3.3	26	91	1	138	54	26	19	0	1.45
4605988--4606081	21	4.5	21	76	5	91	45	28	0	25	1.54
4606355--4606395	14	3.1	14	76	20	52	41	0	4	53	1.22
4607183--4607265	20	4.2	20	87	0	121	25	18	26	30	1.98
4607256--4607328	20	3.7	20	92	0	92	21	19	20	38	1.94
4608179--4608244	21	3.2	21	73	4	80	16	18	27	37	1.92
4608187--4608251	20	3.2	20	72	10	69	20	20	26	33	1.96
4608154--4608342	101	1.9	100	93	3	326	22	23	21	32	1.98
4608313--4608376	22	3.0	22	70	14	55	18	15	21	43	1.87
4608452--4608488	6	6.2	6	93	0	65	35	45	16	2	1.61
4608962--4608996	5	7.2	5	96	3	63	0	42	20	37	1.52
4608998--4609024	6	4.5	6	100	0	54	0	14	51	33	1.43
4609109--4609193	19	4.3	19	76	8	98	41	18	20	20	1.91
4609102--4609338	41	5.8	41	76	11	182	39	22	19	18	1.93
4609109--4609297	60	3.1	60	85	6	272	39	21	20	19	1.93
4609165--4609358	104	1.9	104	97	0	370	37	23	20	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4609330--4609383	21	2.6	21	90	0	90	27	29	16	25	1.97
4609811--4609848	2	19.0	2	100	0	76	50	0	0	50	1.00
4609895--4609926	15	2.3	15	89	10	50	31	0	9	59	1.29
4612198--4612226	2	14.5	2	100	0	58	48	0	0	51	1.00
4613311--4613369	28	2.1	28	87	0	82	37	18	16	27	1.93
4614129--4614162	17	2.0	17	88	0	50	44	20	8	26	1.81
4614667--4614693	2	13.5	2	100	0	54	48	0	0	51	1.00
4626792--4626823	2	16.5	2	93	6	57	53	0	0	46	1.00
4630183--4630315	60	2.2	62	90	4	209	33	25	5	36	1.79
4630152--4630283	31	4.3	31	70	16	114	34	24	6	35	1.80

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